HEADER OXIDOREDUCTASE 06-SEP-24 9GP4 TITLE JUMONJI DOMAIN-CONTAINING PROTEIN 2A WITH CRYSTALLIZATION EPITOPE TITLE 2 MUTATIONS Q953E:A958D COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSINE-SPECIFIC DEMETHYLASE 4A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3A, COMPND 5 JUMONJI DOMAIN-CONTAINING PROTEIN 2A,[HISTONE H3]-TRIMETHYL-L- COMPND 6 LYSINE(36) DEMETHYLASE 4A,[HISTONE H3]-TRIMETHYL-L-LYSINE(9) COMPND 7 DEMETHYLASE 4A; COMPND 8 EC: 1.14.11.66,1.14.11.69; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: KDM4A, JHDM3A, JMJD2, JMJD2A, KIAA0677; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CRYSTAL EPITOPES, JUMONJI DOMAIN, STRUCTURAL GENOMICS, STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, SGC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.FAIRHEAD,C.STRAIN-DAMERELL,M.YE,S.R.MACKINNON,D.PINKAS,E.M.MACLEAN, AUTHOR 2 L.KOEKEMOER,D.DAMERELL,T.KROJER,C.H.ARROWSMITH,A.EDWARDS,C.BOUNTRA, AUTHOR 3 W.YUE,N.BURGESS-BROWN,B.MARSDEN,F.VON DELFT,STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (SGC) REVDAT 1 16-OCT-24 9GP4 0 JRNL AUTH M.FAIRHEAD,C.STRAIN-DAMERELL,M.YE,S.R.MACKINNON,D.PINKAS, JRNL AUTH 2 E.M.MACLEAN,L.KOEKEMOER,D.DAMERELL,T.KROJER,W.YUE, JRNL AUTH 3 N.BURGESS-BROWN,B.MARSDEN,F.VON DELFT JRNL TITL A FAST, PARALLEL METHOD FOR EFFICIENTLY EXPLORING JRNL TITL 2 CRYSTALLIZATION BEHAVIOUR OF LARGE NUMBERS OF PROTEIN JRNL TITL 3 VARIANTS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 (REFMACAT 0.4.82) REMARK 3 AUTHORS : NULL 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) : 55.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 29114 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.723 REMARK 3 FREE R VALUE TEST SET COUNT : 1375 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) : 1.59 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.63 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2028 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 89 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 931 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 111 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.065 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.058 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.100 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1024 ; 0.013 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 911 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1387 ; 1.977 ; 1.831 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2112 ; 0.839 ; 1.762 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 125 ; 7.656 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 4 ; 9.383 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 166 ;12.701 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 145 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1221 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 233 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 119 ; 0.178 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 51 ; 0.098 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 453 ; 0.161 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 79 ; 0.207 ; 0.200 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): 488 ; 6.652 ; 2.356 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 488 ; 6.607 ; 2.354 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 617 ; 9.364 ; 4.253 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 618 ; 9.375 ; 4.255 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 536 ;11.836 ; 3.005 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 529 ;11.422 ; 2.938 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 770 ;16.631 ; 5.274 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 759 ;16.172 ; 5.150 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): 1935 ; 4.862 ; 3.000 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9GP4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1292141353. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.916 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 : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29690 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 96.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 38.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.62 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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 (%): 68.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 0.1M BIS-TRIS PH REMARK 280 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 3 2 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4 REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4 REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4 REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4 REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4 REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4 REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4 REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4 REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4 REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4 REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4 REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4 REMARK 290 25555 X+1/2,Y+1/2,Z+1/2 REMARK 290 26555 -X,-Y+1/2,Z REMARK 290 27555 -X+1/2,Y,-Z REMARK 290 28555 X,-Y,-Z+1/2 REMARK 290 29555 Z+1/2,X+1/2,Y+1/2 REMARK 290 30555 Z,-X,-Y+1/2 REMARK 290 31555 -Z,-X+1/2,Y REMARK 290 32555 -Z+1/2,X,-Y REMARK 290 33555 Y+1/2,Z+1/2,X+1/2 REMARK 290 34555 -Y+1/2,Z,-X REMARK 290 35555 Y,-Z,-X+1/2 REMARK 290 36555 -Y,-Z+1/2,X REMARK 290 37555 Y+1/4,X+3/4,-Z+3/4 REMARK 290 38555 -Y+1/4,-X+1/4,-Z+1/4 REMARK 290 39555 Y+3/4,-X+3/4,Z+1/4 REMARK 290 40555 -Y+3/4,X+1/4,Z+3/4 REMARK 290 41555 X+1/4,Z+3/4,-Y+3/4 REMARK 290 42555 -X+3/4,Z+1/4,Y+3/4 REMARK 290 43555 -X+1/4,-Z+1/4,-Y+1/4 REMARK 290 44555 X+3/4,-Z+3/4,Y+1/4 REMARK 290 45555 Z+1/4,Y+3/4,-X+3/4 REMARK 290 46555 Z+3/4,-Y+3/4,X+1/4 REMARK 290 47555 -Z+3/4,Y+1/4,X+3/4 REMARK 290 48555 -Z+1/4,-Y+1/4,-X+1/4 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 68.05000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY1 25 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY2 25 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY3 25 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY1 26 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 26 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY3 26 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 27 -1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY2 27 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 27 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 28 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 28 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 28 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY1 29 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY2 29 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY3 29 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY1 30 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 30 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 30 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY1 31 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 31 -1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY3 31 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 32 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY2 32 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 32 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 33 0.000000 1.000000 0.000000 68.05000 REMARK 290 SMTRY2 33 0.000000 0.000000 1.000000 68.05000 REMARK 290 SMTRY3 33 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY1 34 0.000000 -1.000000 0.000000 68.05000 REMARK 290 SMTRY2 34 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 34 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 35 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 35 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 35 -1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY1 36 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 36 0.000000 0.000000 -1.000000 68.05000 REMARK 290 SMTRY3 36 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 37 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY2 37 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY3 37 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY1 38 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY2 38 -1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY3 38 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY1 39 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY2 39 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY3 39 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY1 40 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY2 40 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY3 40 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY1 41 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY2 41 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY3 41 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY1 42 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY2 42 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY3 42 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY1 43 -1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY2 43 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY3 43 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY1 44 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY2 44 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY3 44 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY1 45 0.000000 0.000000 1.000000 34.02500 REMARK 290 SMTRY2 45 0.000000 1.000000 0.000000 102.07500 REMARK 290 SMTRY3 45 -1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY1 46 0.000000 0.000000 1.000000 102.07500 REMARK 290 SMTRY2 46 0.000000 -1.000000 0.000000 102.07500 REMARK 290 SMTRY3 46 1.000000 0.000000 0.000000 34.02500 REMARK 290 SMTRY1 47 0.000000 0.000000 -1.000000 102.07500 REMARK 290 SMTRY2 47 0.000000 1.000000 0.000000 34.02500 REMARK 290 SMTRY3 47 1.000000 0.000000 0.000000 102.07500 REMARK 290 SMTRY1 48 0.000000 0.000000 -1.000000 34.02500 REMARK 290 SMTRY2 48 0.000000 -1.000000 0.000000 34.02500 REMARK 290 SMTRY3 48 -1.000000 0.000000 0.000000 34.02500 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 352 LIES ON A SPECIAL POSITION. 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 SER A 1 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 HH22 ARG A 27 O1 SO4 A 207 1.57 REMARK 500 O HOH A 369 O HOH A 371 2.00 REMARK 500 O HOH A 365 O HOH A 395 2.19 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 GLU A 50 CD GLU A 50 OE1 0.074 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 ASN A 46 35.05 -144.63 REMARK 500 VAL A 84 -60.75 -102.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 72 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9GP4 A 3 117 UNP O75164 KDM4A_HUMAN 897 1011 SEQADV 9GP4 SER A 1 UNP O75164 EXPRESSION TAG SEQADV 9GP4 MET A 2 UNP O75164 EXPRESSION TAG SEQADV 9GP4 ALA A 19 UNP O75164 ARG 913 CONFLICT SEQADV 9GP4 GLU A 59 UNP O75164 GLN 953 ENGINEERED MUTATION SEQADV 9GP4 ASP A 64 UNP O75164 ALA 958 ENGINEERED MUTATION SEQRES 1 A 117 SER MET GLN SER ILE THR ALA GLY GLN LYS VAL ILE SER SEQRES 2 A 117 LYS HIS LYS ASN GLY ALA PHE TYR GLN CYS GLU VAL VAL SEQRES 3 A 117 ARG LEU THR THR GLU THR PHE TYR GLU VAL ASN PHE ASP SEQRES 4 A 117 ASP GLY SER PHE SER ASP ASN LEU TYR PRO GLU ASP ILE SEQRES 5 A 117 VAL SER GLN ASP CYS LEU GLU PHE GLY PRO PRO ASP GLU SEQRES 6 A 117 GLY GLU VAL VAL GLN VAL ARG TRP THR ASP GLY GLN VAL SEQRES 7 A 117 TYR GLY ALA LYS PHE VAL ALA SER HIS PRO ILE GLN MET SEQRES 8 A 117 TYR GLN VAL GLU PHE GLU ASP GLY SER GLN LEU VAL VAL SEQRES 9 A 117 LYS ARG ASP ASP VAL TYR THR LEU ASP GLU GLU LEU PRO HET EDO A 201 8 HET EDO A 202 8 HET EDO A 203 8 HET EDO A 204 8 HET EDO A 205 8 HET SO4 A 206 5 HET SO4 A 207 5 HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 5(C2 H6 O2) FORMUL 7 SO4 2(O4 S 2-) FORMUL 9 HOH *111(H2 O) HELIX 1 AA1 TYR A 48 ILE A 52 5 5 HELIX 2 AA2 ASP A 56 GLY A 61 1 6 HELIX 3 AA3 ASP A 107 VAL A 109 5 3 SHEET 1 AA1 4 LYS A 10 LYS A 14 0 SHEET 2 AA1 4 PHE A 20 PHE A 38 -1 O CYS A 23 N VAL A 11 SHEET 3 AA1 4 VAL A 78 GLU A 95 -1 O MET A 91 N THR A 29 SHEET 4 AA1 4 VAL A 68 ARG A 72 -1 N VAL A 69 O ALA A 81 SHEET 1 AA2 4 PHE A 43 LEU A 47 0 SHEET 2 AA2 4 PHE A 20 PHE A 38 -1 N TYR A 34 O LEU A 47 SHEET 3 AA2 4 VAL A 78 GLU A 95 -1 O MET A 91 N THR A 29 SHEET 4 AA2 4 GLN A 101 LYS A 105 -1 O LEU A 102 N VAL A 94 CISPEP 1 LEU A 116 PRO A 117 0 -21.87 CRYST1 136.100 136.100 136.100 90.00 90.00 90.00 I 41 3 2 48 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 0.007348 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007348 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007348 0.00000