HEADER HYDROLASE 24-FEB-15 4YEN TITLE ROOM TEMPERATURE X-RAY DIFFRACTION STUDIES OF CISPLATIN BINDING TO TITLE 2 HEWL IN DMSO MEDIA AFTER 14 MONTHS OF CRYSTAL STORAGE - NEW TITLE 3 REFINEMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME C; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-BETA-N-ACETYLMURAMIDASE C,ALLERGEN GAL D IV; COMPND 5 EC: 3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031 KEYWDS RE-REFINEMENT OF 4G4A, HYDROLASE, CISPLATIN, METAL BINDING EXPDTA X-RAY DIFFRACTION AUTHOR I.G.SHABALIN,Z.DAUTER,M.JASKOLSKI,W.MINOR,A.WLODAWER REVDAT 8 27-SEP-23 4YEN 1 REMARK REVDAT 7 13-APR-22 4YEN 1 AUTHOR JRNL LINK REVDAT 6 25-DEC-19 4YEN 1 REMARK REVDAT 5 06-SEP-17 4YEN 1 REMARK REVDAT 4 04-NOV-15 4YEN 1 JRNL REVDAT 3 16-SEP-15 4YEN 1 JRNL REVDAT 2 09-SEP-15 4YEN 1 JRNL REVDAT 1 04-MAR-15 4YEN 0 JRNL AUTH I.SHABALIN,Z.DAUTER,M.JASKOLSKI,W.MINOR,A.WLODAWER JRNL TITL CRYSTALLOGRAPHY AND CHEMISTRY SHOULD ALWAYS GO TOGETHER: A JRNL TITL 2 CAUTIONARY TALE OF PROTEIN COMPLEXES WITH CISPLATIN AND JRNL TITL 3 CARBOPLATIN. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 71 1965 2015 JRNL REFN ESSN 1399-0047 JRNL PMID 26327386 JRNL DOI 10.1107/S139900471500629X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.W.TANLEY,A.M.SCHREURS,L.M.KROON-BATENBURG,J.R.HELLIWELL REMARK 1 TITL ROOM-TEMPERATURE X-RAY DIFFRACTION STUDIES OF CISPLATIN AND REMARK 1 TITL 2 CARBOPLATIN BINDING TO HIS15 OF HEWL AFTER PROLONGED REMARK 1 TITL 3 CHEMICAL EXPOSURE. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 68 1300 2012 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 23143236 REMARK 1 DOI 10.1107/S1744309112042005 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 8107 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 450 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 576 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.1770 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.2120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 995 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 74 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.06000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.12000 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): 0.161 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.737 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1028 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 941 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1395 ; 1.578 ; 1.904 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2142 ; 1.069 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 130 ; 6.307 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 50 ;38.320 ;23.400 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 164 ;14.340 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;23.506 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 146 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1214 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 270 ; 0.002 ; 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): 517 ; 0.906 ; 1.515 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 516 ; 0.905 ; 1.513 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 645 ; 1.540 ; 2.268 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): 1 ;25.995 ; 0.100 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6 ;30.527 ; 0.100 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 : 4 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 1 A 20 REMARK 3 ORIGIN FOR THE GROUP (A): -17.8880 -8.4240 -15.8170 REMARK 3 T TENSOR REMARK 3 T11: 0.0883 T22: 0.0643 REMARK 3 T33: 0.1034 T12: -0.0058 REMARK 3 T13: 0.0297 T23: -0.0395 REMARK 3 L TENSOR REMARK 3 L11: 1.8120 L22: 3.3120 REMARK 3 L33: 2.0818 L12: -0.0917 REMARK 3 L13: -0.4862 L23: -0.0172 REMARK 3 S TENSOR REMARK 3 S11: -0.0792 S12: 0.0256 S13: -0.3131 REMARK 3 S21: -0.1807 S22: 0.0876 S23: -0.1605 REMARK 3 S31: 0.2203 S32: 0.0952 S33: -0.0085 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 21 A 45 REMARK 3 ORIGIN FOR THE GROUP (A): -22.3290 0.2700 -13.0420 REMARK 3 T TENSOR REMARK 3 T11: 0.0837 T22: 0.0792 REMARK 3 T33: 0.0913 T12: 0.0062 REMARK 3 T13: 0.0065 T23: -0.0120 REMARK 3 L TENSOR REMARK 3 L11: 3.5398 L22: 3.7108 REMARK 3 L33: 1.4439 L12: 2.0257 REMARK 3 L13: -0.2216 L23: 0.3403 REMARK 3 S TENSOR REMARK 3 S11: -0.0921 S12: 0.0777 S13: -0.0579 REMARK 3 S21: 0.0085 S22: 0.0757 S23: -0.0194 REMARK 3 S31: -0.0410 S32: 0.0092 S33: 0.0164 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 46 A 111 REMARK 3 ORIGIN FOR THE GROUP (A): -18.1390 3.0870 -2.7200 REMARK 3 T TENSOR REMARK 3 T11: 0.0973 T22: 0.0843 REMARK 3 T33: 0.0674 T12: -0.0158 REMARK 3 T13: 0.0194 T23: 0.0044 REMARK 3 L TENSOR REMARK 3 L11: 2.6200 L22: 2.5785 REMARK 3 L33: 0.7990 L12: 1.3925 REMARK 3 L13: 0.5877 L23: -0.1033 REMARK 3 S TENSOR REMARK 3 S11: 0.1488 S12: -0.2126 S13: -0.0408 REMARK 3 S21: 0.2181 S22: -0.1605 S23: -0.0161 REMARK 3 S31: -0.0070 S32: 0.0054 S33: 0.0117 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 112 A 129 REMARK 3 ORIGIN FOR THE GROUP (A): -29.4800 -5.7940 -18.2160 REMARK 3 T TENSOR REMARK 3 T11: 0.1193 T22: 0.1009 REMARK 3 T33: 0.1230 T12: -0.0189 REMARK 3 T13: -0.0296 T23: -0.0066 REMARK 3 L TENSOR REMARK 3 L11: 5.1711 L22: 6.2838 REMARK 3 L33: 6.9954 L12: -3.3548 REMARK 3 L13: -3.1194 L23: 4.2654 REMARK 3 S TENSOR REMARK 3 S11: -0.0181 S12: 0.2038 S13: -0.3057 REMARK 3 S21: -0.0974 S22: 0.0071 S23: 0.0927 REMARK 3 S31: 0.1922 S32: -0.1637 S33: 0.0111 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: REMARK 3 U VALUES : WITH TLS ADDED HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS REMARK 3 THIS DEPOSIT RESULTED FROM AN ANALYSIS OF A NUMBER OF PDB ENTRIES REMARK 3 THAT CONTAIN CISPLATIN OR CARBOPLATIN IN COMPLEX WITH PROTEINS, REMARK 3 CONDUCTED IN THE SPIRIT OF THE TERWILLIGER-BRICOGNE MOTTO REMARK 3 ADVOCATING CONTINUOUS IMPROVEMENT OF THE MACROMOLECULAR MODELS IN REMARK 3 THE PDB (ACTA CRYST. D70, 2533, 2014). SINCE THE ORIGINAL DATA REMARK 3 FRAMES FOR THIS STRUCTURE ARE AVAILABLE AT THE HTTP:// REMARK 3 RAWDATA.CHEM.UU.NL SERVER, THEY HAVE BEEN RE-PROCESSED, AND THE REMARK 3 NEW STRUCTURE FACTORS HAVE BEEN USED FOR THE PRESENT RE- REMARK 3 REFINEMENT. THE COORDINATES ORIGINALLY DEPOSITED AS 4G4A WERE USED REMARK 3 AS THE STARTING POINT FOR THIS INDEPENDENT RE-REFINEMENT. THE NEW REMARK 3 MODEL IS BASED ON DATA EXTENDING TO HIGHER RESOLUTION, INCLUDES REMARK 3 SOME REINTERPRETATION OF THE LIGANDS, HAS LOWER R FACTORS, AND REMARK 3 IMPROVED STATISTICS DESCRIBING THE AGREEMENT WITH THE EXPERIMENTAL REMARK 3 DATA. REMARK 4 REMARK 4 4YEN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000207296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JAN-12 REMARK 200 TEMPERATURE (KELVIN) : 295 REMARK 200 PH : 4.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MIRROR OPTICS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : APEX II CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8602 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : 8.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.57100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4G4A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEWL CO-CRYSTALLIZED WITH CISPLATIN REMARK 280 WITH 5% DMSO MEDIA IN 1 ML 10% SODIUM CHLORIDE + 1 ML 0.04 M REMARK 280 SODIUM ACETATE, PH 4.7, BATCH MODE, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 18.99250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.55650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.55650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.48875 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.55650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.55650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 9.49625 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.55650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.55650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.48875 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.55650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.55650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 9.49625 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 18.99250 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 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 303 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 337 LIES ON A SPECIAL POSITION. 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 125 CG CD NE CZ NH1 NH2 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 ARG A 45 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 112 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES 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 PT A 200 PT REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 14 NH1 REMARK 620 2 HIS A 15 NE2 100.8 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PT A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PT A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 207 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4G4A RELATED DB: PDB REMARK 900 THIS ENTRY CONTAINS INDEPENDENT RE-REFINEMENT OF 4G4A. DIFFRACTION REMARK 900 IMAGES DEPOSITED BY THE ORIGINAL AUTHORS WERE USED TO RE-PROCESS REMARK 900 THE DATA DBREF 4YEN A 1 129 UNP P00698 LYSC_CHICK 19 147 SEQRES 1 A 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS SEQRES 2 A 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 A 129 ASN TRP VAL CYS ALA ALA LYS PHE GLU SER ASN PHE ASN SEQRES 4 A 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 A 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 A 129 ASP GLY ARG THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 A 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 A 129 VAL ASN CYS ALA LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 A 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 A 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU HET PT A 200 1 HET PT A 201 1 HET CL A 202 1 HET CL A 203 1 HET CL A 204 1 HET CL A 205 1 HET CL A 206 1 HET DMS A 207 4 HETNAM PT PLATINUM (II) ION HETNAM CL CHLORIDE ION HETNAM DMS DIMETHYL SULFOXIDE FORMUL 2 PT 2(PT 2+) FORMUL 4 CL 5(CL 1-) FORMUL 9 DMS C2 H6 O S FORMUL 10 HOH *74(H2 O) HELIX 1 AA1 GLY A 4 HIS A 15 1 12 HELIX 2 AA2 ASN A 19 TYR A 23 5 5 HELIX 3 AA3 SER A 24 ASN A 37 1 14 HELIX 4 AA4 PRO A 79 SER A 85 5 7 HELIX 5 AA5 ILE A 88 ASP A 101 1 14 HELIX 6 AA6 ASN A 103 ALA A 107 5 5 HELIX 7 AA7 TRP A 108 CYS A 115 1 8 HELIX 8 AA8 ASP A 119 ARG A 125 5 7 SHEET 1 AA1 3 THR A 43 ARG A 45 0 SHEET 2 AA1 3 THR A 51 TYR A 53 -1 O ASP A 52 N ASN A 44 SHEET 3 AA1 3 ILE A 58 ASN A 59 -1 O ILE A 58 N TYR A 53 SSBOND 1 CYS A 6 CYS A 127 1555 1555 2.02 SSBOND 2 CYS A 30 CYS A 115 1555 1555 2.05 SSBOND 3 CYS A 64 CYS A 80 1555 1555 2.05 SSBOND 4 CYS A 76 CYS A 94 1555 1555 2.04 LINK NH1 ARG A 14 PT PT A 200 1555 1555 2.26 LINK NE2 HIS A 15 PT PT A 200 1555 1555 2.34 LINK ND1 HIS A 15 PT PT A 201 1555 1555 2.28 SITE 1 AC1 4 ARG A 14 HIS A 15 CL A 205 CL A 206 SITE 1 AC2 4 HIS A 15 CL A 202 CL A 203 CL A 204 SITE 1 AC3 4 HIS A 15 VAL A 92 PT A 201 CL A 203 SITE 1 AC4 3 PT A 201 CL A 202 CL A 204 SITE 1 AC5 3 HIS A 15 PT A 201 CL A 203 SITE 1 AC6 4 HIS A 15 ILE A 88 PT A 200 CL A 206 SITE 1 AC7 3 ARG A 14 PT A 200 CL A 205 SITE 1 AC8 5 GLN A 57 ILE A 58 ASN A 59 TRP A 63 SITE 2 AC8 5 ALA A 107 CRYST1 79.113 79.113 37.985 90.00 90.00 90.00 P 43 21 2 8 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 0.012640 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012640 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026326 0.00000