HEADER OXIDOREDUCTASE 04-MAY-21 7EQV TITLE CRYSTAL STRUCTURE OF JMJD2A COMPLEXED WITH 3,4-DIHYDROXYBENZOIC ACID 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 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 HUMAN HISTONE LYSINE DEMETHYLASE 4A, LYSINE-SPECIFIC DEMETHYLASE 4A, KEYWDS 2 KDM4A, JMJD2A, 3, 4-DIHYDROXYBENZOIC ACID, INHIBITOR, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.-K.FANG,S.-M.YANG,W.-C.WANG REVDAT 3 29-NOV-23 7EQV 1 REMARK REVDAT 2 30-NOV-22 7EQV 1 JRNL REVDAT 1 18-MAY-22 7EQV 0 JRNL AUTH J.S.LIU,W.K.FANG,S.M.YANG,M.C.WU,T.J.CHEN,C.M.CHEN,T.Y.LIN, JRNL AUTH 2 K.L.LIU,C.M.WU,Y.C.CHEN,C.P.CHUU,L.Y.WANG,H.P.HSIEH, JRNL AUTH 3 H.J.KUNG,W.C.WANG JRNL TITL NATURAL PRODUCT MYRICETIN IS A PAN-KDM4 INHIBITOR WHICH WITH JRNL TITL 2 POLY LACTIC-CO-GLYCOLIC ACID FORMULATION EFFECTIVELY TARGETS JRNL TITL 3 CASTRATION-RESISTANT PROSTATE CANCER. JRNL REF J.BIOMED.SCI. V. 29 29 2022 JRNL REFN ESSN 1423-0127 JRNL PMID 35534851 JRNL DOI 10.1186/S12929-022-00812-3 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0218 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 21751 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1112 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 813 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 47.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE SET COUNT : 50 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2799 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 150 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.02000 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): 0.250 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.223 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.143 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.041 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2895 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2621 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3918 ; 1.959 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6086 ; 0.948 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 339 ; 7.222 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 140 ;32.493 ;23.143 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 492 ;19.527 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;23.161 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 399 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3194 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 649 ; 0.001 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7EQV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1300021917. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-18 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97622 REMARK 200 MONOCHROMATOR : LN2-COOLED, FIXED-EXIT DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24683 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 129.380 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 17.80 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 12.00 REMARK 200 R MERGE FOR SHELL (I) : 0.68700 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 2.8.2 REMARK 200 STARTING MODEL: 4BIS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG3350, 0.1 M HEPES PH 7.5, 0.2M REMARK 280 NACL, 277 K, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 20.72500 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 41.45000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.45000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 20.72500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 41.45000 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 611 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 PRO A 348 REMARK 465 GLU A 349 REMARK 465 ALA A 350 REMARK 465 ALA A 351 REMARK 465 GLU A 352 REMARK 465 PHE A 353 REMARK 465 LEU A 354 REMARK 465 LYS A 355 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 TYR A 59 43.73 -109.06 REMARK 500 ALA A 69 52.73 -153.14 REMARK 500 ALA A 91 132.11 -33.76 REMARK 500 SER A 112 -82.79 -97.58 REMARK 500 ARG A 152 67.35 -158.06 REMARK 500 VAL A 171 -62.08 -108.72 REMARK 500 ALA A 236 53.51 -92.68 REMARK 500 CYS A 308 3.18 -68.49 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 NI A 402 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 188 NE2 REMARK 620 2 GLU A 190 OE2 105.8 REMARK 620 3 DHB A 401 O3 98.7 117.6 REMARK 620 4 DHB A 401 O4 88.2 151.6 83.4 REMARK 620 5 HOH A 507 O 150.3 78.4 55.7 101.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 234 SG REMARK 620 2 HIS A 240 NE2 122.2 REMARK 620 3 CYS A 306 SG 119.0 103.7 REMARK 620 4 CYS A 308 SG 115.4 85.3 105.3 REMARK 620 N 1 2 3 DBREF 7EQV A 8 355 UNP O75164 KDM4A_HUMAN 8 355 SEQRES 1 A 348 LEU ASN PRO SER ALA ARG ILE MET THR PHE TYR PRO THR SEQRES 2 A 348 MET GLU GLU PHE ARG ASN PHE SER ARG TYR ILE ALA TYR SEQRES 3 A 348 ILE GLU SER GLN GLY ALA HIS ARG ALA GLY LEU ALA LYS SEQRES 4 A 348 VAL VAL PRO PRO LYS GLU TRP LYS PRO ARG ALA SER TYR SEQRES 5 A 348 ASP ASP ILE ASP ASP LEU VAL ILE PRO ALA PRO ILE GLN SEQRES 6 A 348 GLN LEU VAL THR GLY GLN SER GLY LEU PHE THR GLN TYR SEQRES 7 A 348 ASN ILE GLN LYS LYS ALA MET THR VAL ARG GLU PHE ARG SEQRES 8 A 348 LYS ILE ALA ASN SER ASP LYS TYR CYS THR PRO ARG TYR SEQRES 9 A 348 SER GLU PHE GLU GLU LEU GLU ARG LYS TYR TRP LYS ASN SEQRES 10 A 348 LEU THR PHE ASN PRO PRO ILE TYR GLY ALA ASP VAL ASN SEQRES 11 A 348 GLY THR LEU TYR GLU LYS HIS VAL ASP GLU TRP ASN ILE SEQRES 12 A 348 GLY ARG LEU ARG THR ILE LEU ASP LEU VAL GLU LYS GLU SEQRES 13 A 348 SER GLY ILE THR ILE GLU GLY VAL ASN THR PRO TYR LEU SEQRES 14 A 348 TYR PHE GLY MET TRP LYS THR SER PHE ALA TRP HIS THR SEQRES 15 A 348 GLU ASP MET ASP LEU TYR SER ILE ASN TYR LEU HIS PHE SEQRES 16 A 348 GLY GLU PRO LYS SER TRP TYR SER VAL PRO PRO GLU HIS SEQRES 17 A 348 GLY LYS ARG LEU GLU ARG LEU ALA LYS GLY PHE PHE PRO SEQRES 18 A 348 GLY SER ALA GLN SER CYS GLU ALA PHE LEU ARG HIS LYS SEQRES 19 A 348 MET THR LEU ILE SER PRO LEU MET LEU LYS LYS TYR GLY SEQRES 20 A 348 ILE PRO PHE ASP LYS VAL THR GLN GLU ALA GLY GLU PHE SEQRES 21 A 348 MET ILE THR PHE PRO TYR GLY TYR HIS ALA GLY PHE ASN SEQRES 22 A 348 HIS GLY PHE ASN CYS ALA GLU SER THR ASN PHE ALA THR SEQRES 23 A 348 ARG ARG TRP ILE GLU TYR GLY LYS GLN ALA VAL LEU CYS SEQRES 24 A 348 SER CYS ARG LYS ASP MET VAL LYS ILE SER MET ASP VAL SEQRES 25 A 348 PHE VAL ARG LYS PHE GLN PRO GLU ARG TYR LYS LEU TRP SEQRES 26 A 348 LYS ALA GLY LYS ASP ASN THR VAL ILE ASP HIS THR LEU SEQRES 27 A 348 PRO THR PRO GLU ALA ALA GLU PHE LEU LYS HET DHB A 401 11 HET NI A 402 1 HET ZN A 403 1 HET CL A 404 1 HETNAM DHB 3,4-DIHYDROXYBENZOIC ACID HETNAM NI NICKEL (II) ION HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION FORMUL 2 DHB C7 H6 O4 FORMUL 3 NI NI 2+ FORMUL 4 ZN ZN 2+ FORMUL 5 CL CL 1- FORMUL 6 HOH *150(H2 O) HELIX 1 AA1 THR A 20 ARG A 25 1 6 HELIX 2 AA2 ASN A 26 GLN A 37 1 12 HELIX 3 AA3 GLY A 38 ALA A 42 5 5 HELIX 4 AA4 VAL A 94 SER A 103 1 10 HELIX 5 AA5 GLU A 113 LEU A 125 1 13 HELIX 6 AA6 THR A 155 LEU A 157 5 3 HELIX 7 AA7 ASP A 158 GLY A 165 1 8 HELIX 8 AA8 GLU A 190 LEU A 194 5 5 HELIX 9 AA9 PRO A 212 GLU A 214 5 3 HELIX 10 AB1 HIS A 215 PHE A 227 1 13 HELIX 11 AB2 PHE A 227 CYS A 234 1 8 HELIX 12 AB3 ALA A 236 LYS A 241 5 6 HELIX 13 AB4 SER A 246 TYR A 253 1 8 HELIX 14 AB5 ARG A 295 GLN A 302 1 8 HELIX 15 AB6 MET A 317 GLN A 325 1 9 HELIX 16 AB7 ARG A 328 ALA A 334 1 7 SHEET 1 AA110 MET A 15 PHE A 17 0 SHEET 2 AA110 LEU A 44 VAL A 47 1 O LYS A 46 N MET A 15 SHEET 3 AA110 PHE A 267 THR A 270 -1 O ILE A 269 N ALA A 45 SHEET 4 AA110 TYR A 195 GLY A 203 -1 N SER A 196 O THR A 270 SHEET 5 AA110 ASN A 284 PHE A 291 -1 O GLU A 287 N TYR A 199 SHEET 6 AA110 TYR A 175 GLY A 179 -1 N TYR A 175 O SER A 288 SHEET 7 AA110 ILE A 131 ASN A 137 -1 N GLY A 133 O PHE A 178 SHEET 8 AA110 ILE A 71 GLN A 78 -1 N ILE A 71 O TYR A 132 SHEET 9 AA110 LEU A 81 GLN A 88 -1 O TYR A 85 N LEU A 74 SHEET 10 AA110 THR A 243 ILE A 245 -1 O LEU A 244 N PHE A 82 SHEET 1 AA2 2 VAL A 66 ILE A 67 0 SHEET 2 AA2 2 MET A 92 THR A 93 -1 O MET A 92 N ILE A 67 SHEET 1 AA3 4 SER A 184 HIS A 188 0 SHEET 2 AA3 4 TYR A 275 ASN A 280 -1 O GLY A 278 N PHE A 185 SHEET 3 AA3 4 LYS A 206 VAL A 211 -1 N TYR A 209 O ALA A 277 SHEET 4 AA3 4 ASP A 258 GLN A 262 -1 O VAL A 260 N TRP A 208 LINK NE2 HIS A 188 NI NI A 402 1555 1555 2.30 LINK OE2 GLU A 190 NI NI A 402 1555 1555 1.91 LINK SG CYS A 234 ZN ZN A 403 1555 1555 2.11 LINK NE2 HIS A 240 ZN ZN A 403 1555 1555 2.01 LINK SG CYS A 306 ZN ZN A 403 1555 1555 2.20 LINK SG CYS A 308 ZN ZN A 403 1555 1555 2.49 LINK O3 DHB A 401 NI NI A 402 1555 1555 2.37 LINK O4 DHB A 401 NI NI A 402 1555 1555 1.72 LINK NI NI A 402 O HOH A 507 1555 1555 2.79 CRYST1 149.396 149.396 62.175 90.00 90.00 120.00 P 31 2 1 6 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 0.006694 0.003865 0.000000 0.00000 SCALE2 0.000000 0.007729 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016084 0.00000