HEADER OXIDOREDUCTASE 02-APR-11 3RE0 TITLE CRYSTAL STRUCTURE OF HUMAN APO CU,ZN SUPEROXIDE DISMUTASE (SOD1) TITLE 2 COMPLEXED WITH CISPLATIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPEROXIDE DISMUTASE [CU-ZN]; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 1.15.1.1; COMPND 5 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: SOD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SOD1, CISPLATIN, ALS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR I.BERTINI,O.BLAZEVITS,V.CALDERONE,M.JAIFEI,M.VIERU,I.AMORI, AUTHOR 2 M.COZZOLINO,M.T.CARRI,L.BANCI REVDAT 3 01-NOV-23 3RE0 1 REMARK LINK REVDAT 2 03-JUL-13 3RE0 1 JRNL REVDAT 1 25-APR-12 3RE0 0 JRNL AUTH L.BANCI,I.BERTINI,O.BLAZEVITS,V.CALDERONE,F.CANTINI,J.MAO, JRNL AUTH 2 A.TRAPANANTI,M.VIERU,I.AMORI,M.COZZOLINO,M.T.CARRI JRNL TITL INTERACTION OF CISPLATIN WITH HUMAN SUPEROXIDE DISMUTASE. JRNL REF J.AM.CHEM.SOC. V. 134 7009 2012 JRNL REFN ISSN 0002-7863 JRNL PMID 22471402 JRNL DOI 10.1021/JA211591N REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.BANCI,I.BERTINI,M.BOCA,V.CALDERONE,F.CANTINI,S.GIROTTO, REMARK 1 AUTH 2 M.VIERU REMARK 1 TITL STRUCTURAL AND DYNAMIC ASPECTS RELATED TO OLIGOMERIZATION OF REMARK 1 TITL 2 APO SOD1 AND ITS MUTANTS. REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 106 6980 2009 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 19369197 REMARK 1 DOI 10.1073/PNAS.0809845106 REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 24261 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2407 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) : 2.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1383 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.3760 REMARK 3 BIN FREE R VALUE SET COUNT : 138 REMARK 3 BIN FREE R VALUE : 0.4700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4027 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 96 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.92000 REMARK 3 B22 (A**2) : 5.14000 REMARK 3 B33 (A**2) : -4.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.84000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.363 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.283 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.215 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.075 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4110 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5547 ; 1.825 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 547 ; 8.493 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;40.440 ;25.556 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 659 ;19.509 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;11.238 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 621 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3125 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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 REMARK 4 REMARK 4 3RE0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064814. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93616 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27768 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 39.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : 0.10000 REMARK 200 FOR THE DATA SET : 4.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.57000 REMARK 200 R SYM FOR SHELL (I) : 0.57000 REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1ECU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.1M HEPES, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 78.70600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.40250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 78.70600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.40250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 1880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 REMARK 350 BIOMOLECULE: 2 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: 1670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 SER C 68 REMARK 465 ARG C 69 REMARK 465 LYS C 70 REMARK 465 HIS C 71 REMARK 465 GLY C 72 REMARK 465 GLY C 73 REMARK 465 PRO C 74 REMARK 465 LYS C 75 REMARK 465 ASP C 76 REMARK 465 GLU C 77 REMARK 465 GLU C 78 REMARK 465 ASP C 125 REMARK 465 LEU C 126 REMARK 465 GLY C 127 REMARK 465 LYS C 128 REMARK 465 GLY C 129 REMARK 465 GLY C 130 REMARK 465 ASN C 131 REMARK 465 GLU C 132 REMARK 465 GLU C 133 REMARK 465 SER C 134 REMARK 465 THR C 135 REMARK 465 LYS C 136 REMARK 465 THR C 137 REMARK 465 GLY C 138 REMARK 465 ASN C 139 REMARK 465 ALA C 140 REMARK 465 LEU D 67 REMARK 465 SER D 68 REMARK 465 ARG D 69 REMARK 465 LYS D 70 REMARK 465 HIS D 71 REMARK 465 GLY D 72 REMARK 465 GLY D 73 REMARK 465 PRO D 74 REMARK 465 LYS D 75 REMARK 465 ASP D 76 REMARK 465 GLU D 77 REMARK 465 GLU D 78 REMARK 465 ARG D 79 REMARK 465 ASP D 125 REMARK 465 LEU D 126 REMARK 465 GLY D 127 REMARK 465 LYS D 128 REMARK 465 GLY D 129 REMARK 465 GLY D 130 REMARK 465 ASN D 131 REMARK 465 GLU D 132 REMARK 465 GLU D 133 REMARK 465 SER D 134 REMARK 465 THR D 135 REMARK 465 LYS D 136 REMARK 465 THR D 137 REMARK 465 GLY D 138 REMARK 465 ASN D 139 REMARK 465 ALA D 140 REMARK 465 GLY D 141 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 8 CA - CB - CG ANGL. DEV. = 15.2 DEGREES REMARK 500 LEU A 38 CB - CG - CD1 ANGL. DEV. = 11.2 DEGREES REMARK 500 THR A 39 C - N - CA ANGL. DEV. = 15.2 DEGREES REMARK 500 GLU A 40 O - C - N ANGL. DEV. = 11.8 DEGREES REMARK 500 VAL A 94 CA - CB - CG1 ANGL. DEV. = 10.5 DEGREES REMARK 500 ASP A 96 CB - CG - OD2 ANGL. DEV. = 7.7 DEGREES REMARK 500 LEU B 38 CA - CB - CG ANGL. DEV. = 16.3 DEGREES REMARK 500 LYS B 91 O - C - N ANGL. DEV. = -12.5 DEGREES REMARK 500 VAL B 94 C - N - CA ANGL. DEV. = 19.2 DEGREES REMARK 500 ASP B 96 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 LEU C 38 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 ASP C 92 O - C - N ANGL. DEV. = -12.9 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 ASN A 65 55.86 -145.15 REMARK 500 ASP A 83 85.79 -67.22 REMARK 500 ASP A 90 -170.08 -69.83 REMARK 500 SER A 98 47.13 -143.03 REMARK 500 ALA A 123 138.76 -36.65 REMARK 500 ASN B 65 67.89 -157.89 REMARK 500 VAL B 94 88.90 54.64 REMARK 500 HIS B 110 24.77 -67.65 REMARK 500 ALA B 123 134.63 -38.45 REMARK 500 LEU B 126 31.14 78.69 REMARK 500 LYS B 128 41.93 -109.20 REMARK 500 THR B 137 -14.04 -141.55 REMARK 500 ASN B 139 59.28 37.72 REMARK 500 ALA C 55 51.48 -102.65 REMARK 500 ASP C 83 99.40 -69.11 REMARK 500 ASP C 90 -164.41 -67.60 REMARK 500 ASP C 92 -141.53 -93.87 REMARK 500 ALA D 55 39.77 -90.38 REMARK 500 ASP D 90 -162.23 -70.66 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 C 93 VAL C 94 -63.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 VAL A 94 -14.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CPT B 202 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 CPT B 201 PT1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 111 SG REMARK 620 2 CPT B 201 N1 76.8 REMARK 620 3 CPT B 201 N2 134.8 91.0 REMARK 620 4 CPT B 201 CL2 104.3 178.2 87.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CPT B 201 PT1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 111 SG REMARK 620 2 CPT B 201 N1 167.2 REMARK 620 3 CPT B 201 N2 132.9 36.6 REMARK 620 4 CPT B 201 CL2 116.0 51.5 22.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CPT C 201 PT1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 111 SG REMARK 620 2 CPT C 201 N1 97.5 REMARK 620 3 CPT C 201 N2 170.0 90.0 REMARK 620 4 CPT C 201 CL2 81.3 178.7 91.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CPT C 201 PT1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 111 SG REMARK 620 2 CPT C 201 N1 143.4 REMARK 620 3 CPT C 201 N2 152.6 16.0 REMARK 620 4 CPT C 201 CL2 162.5 49.4 43.8 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 CPT B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPT B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPT C 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ECU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN APO CU,ZN SUPEROXIDE DISMUTASE (SOD1) REMARK 900 RELATED ID: 3ECV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ALS-RELATED PATHOLOGICAL MUTANT I113T OF REMARK 900 HUMAN APO CU,ZN SUPEROXIDE DISMUTASE (SOD1) REMARK 900 RELATED ID: 3ECW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE ALS-RELATED PATHOLOGICAL MUTANT T54R OF REMARK 900 HUMAN APO CU,ZN SUPEROXIDE DISMUTASE (SOD1) DBREF 3RE0 A 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3RE0 B 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3RE0 C 1 153 UNP P00441 SODC_HUMAN 2 154 DBREF 3RE0 D 1 153 UNP P00441 SODC_HUMAN 2 154 SEQRES 1 A 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 A 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 A 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 A 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 A 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 A 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 A 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 A 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 A 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 A 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 A 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 A 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 B 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 B 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 B 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 B 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 B 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 B 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 B 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 B 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 B 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 B 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 B 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 B 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 C 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 C 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 C 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 C 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 C 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 C 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 C 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 C 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 C 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 C 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 C 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 C 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN SEQRES 1 D 153 ALA THR LYS ALA VAL CYS VAL LEU LYS GLY ASP GLY PRO SEQRES 2 D 153 VAL GLN GLY ILE ILE ASN PHE GLU GLN LYS GLU SER ASN SEQRES 3 D 153 GLY PRO VAL LYS VAL TRP GLY SER ILE LYS GLY LEU THR SEQRES 4 D 153 GLU GLY LEU HIS GLY PHE HIS VAL HIS GLU PHE GLY ASP SEQRES 5 D 153 ASN THR ALA GLY CYS THR SER ALA GLY PRO HIS PHE ASN SEQRES 6 D 153 PRO LEU SER ARG LYS HIS GLY GLY PRO LYS ASP GLU GLU SEQRES 7 D 153 ARG HIS VAL GLY ASP LEU GLY ASN VAL THR ALA ASP LYS SEQRES 8 D 153 ASP GLY VAL ALA ASP VAL SER ILE GLU ASP SER VAL ILE SEQRES 9 D 153 SER LEU SER GLY ASP HIS CYS ILE ILE GLY ARG THR LEU SEQRES 10 D 153 VAL VAL HIS GLU LYS ALA ASP ASP LEU GLY LYS GLY GLY SEQRES 11 D 153 ASN GLU GLU SER THR LYS THR GLY ASN ALA GLY SER ARG SEQRES 12 D 153 LEU ALA CYS GLY VAL ILE GLY ILE ALA GLN HET CPT B 201 8 HET CPT B 202 4 HET CPT C 201 8 HETNAM CPT CISPLATIN HETSYN CPT DIAMMINE(DICHLORO)PLATINUM FORMUL 5 CPT 3(CL2 H6 N2 PT) FORMUL 8 HOH *96(H2 O) HELIX 1 1 ALA A 55 GLY A 61 5 7 HELIX 2 2 SER A 107 CYS A 111 5 5 HELIX 3 3 GLU A 132 LYS A 136 5 5 HELIX 4 4 GLY B 56 GLY B 61 5 6 HELIX 5 5 ASN B 131 THR B 137 1 7 HELIX 6 6 ALA C 55 GLY C 61 5 7 HELIX 7 7 ALA D 55 GLY D 61 5 7 HELIX 8 8 SER D 107 CYS D 111 5 5 SHEET 1 A 5 ALA A 95 ASP A 101 0 SHEET 2 A 5 VAL A 29 LYS A 36 -1 N ILE A 35 O ALA A 95 SHEET 3 A 5 GLN A 15 GLU A 21 -1 N GLU A 21 O LYS A 30 SHEET 4 A 5 LYS A 3 LEU A 8 -1 N CYS A 6 O ILE A 18 SHEET 5 A 5 GLY A 150 ILE A 151 -1 O GLY A 150 N VAL A 5 SHEET 1 B 4 ASP A 83 ALA A 89 0 SHEET 2 B 4 GLY A 41 HIS A 48 -1 N GLY A 41 O ALA A 89 SHEET 3 B 4 THR A 116 HIS A 120 -1 O HIS A 120 N GLY A 44 SHEET 4 B 4 ARG A 143 VAL A 148 -1 O GLY A 147 N LEU A 117 SHEET 1 C 9 LYS B 3 LEU B 8 0 SHEET 2 C 9 GLN B 15 GLN B 22 -1 O GLY B 16 N LEU B 8 SHEET 3 C 9 VAL B 29 LYS B 36 -1 O LYS B 30 N GLU B 21 SHEET 4 C 9 ALA B 95 ASP B 101 -1 O ILE B 99 N VAL B 31 SHEET 5 C 9 ASP B 83 ALA B 89 -1 O THR B 88 N ASP B 96 SHEET 6 C 9 GLY B 41 HIS B 48 -1 N GLY B 41 O ALA B 89 SHEET 7 C 9 THR B 116 HIS B 120 -1 O THR B 116 N HIS B 48 SHEET 8 C 9 ARG B 143 ILE B 151 -1 O ALA B 145 N VAL B 119 SHEET 9 C 9 LYS B 3 LEU B 8 -1 N VAL B 5 O GLY B 150 SHEET 1 D 5 ALA C 95 ASP C 101 0 SHEET 2 D 5 VAL C 29 LYS C 36 -1 N GLY C 33 O VAL C 97 SHEET 3 D 5 GLN C 15 GLN C 22 -1 N GLN C 15 O LYS C 36 SHEET 4 D 5 LYS C 3 LEU C 8 -1 N LEU C 8 O GLY C 16 SHEET 5 D 5 GLY C 150 ILE C 151 -1 O GLY C 150 N VAL C 5 SHEET 1 E 4 ASP C 83 ALA C 89 0 SHEET 2 E 4 GLY C 41 HIS C 48 -1 N GLY C 41 O ALA C 89 SHEET 3 E 4 THR C 116 HIS C 120 -1 O THR C 116 N HIS C 48 SHEET 4 E 4 ARG C 143 VAL C 148 -1 O ALA C 145 N VAL C 119 SHEET 1 F 5 ALA D 95 ASP D 101 0 SHEET 2 F 5 VAL D 29 LYS D 36 -1 N VAL D 29 O ASP D 101 SHEET 3 F 5 GLN D 15 GLU D 21 -1 N ASN D 19 O TRP D 32 SHEET 4 F 5 LYS D 3 LEU D 8 -1 N LEU D 8 O GLY D 16 SHEET 5 F 5 GLY D 150 ILE D 151 -1 O GLY D 150 N VAL D 5 SHEET 1 G 4 ASP D 83 ALA D 89 0 SHEET 2 G 4 GLY D 41 HIS D 48 -1 N GLY D 41 O ALA D 89 SHEET 3 G 4 THR D 116 HIS D 120 -1 O VAL D 118 N HIS D 46 SHEET 4 G 4 ARG D 143 VAL D 148 -1 O GLY D 147 N LEU D 117 SSBOND 1 CYS A 57 CYS A 146 1555 1555 2.14 SSBOND 2 CYS B 57 CYS B 146 1555 1555 2.13 SSBOND 3 CYS C 57 CYS C 146 1555 1555 2.15 SSBOND 4 CYS D 57 CYS D 146 1555 1555 2.11 LINK SG CYS A 111 PT1 ACPT B 201 1555 1555 2.25 LINK SG CYS B 111 PT1 BCPT B 201 1555 1555 2.21 LINK SG CYS C 111 PT1 CCPT C 201 1555 1555 2.18 LINK PT1 DCPT C 201 SG CYS D 111 1555 1555 2.37 CISPEP 1 GLY B 93 VAL B 94 0 23.03 SITE 1 AC1 4 LEU A 106 CYS A 111 LEU B 106 CYS B 111 SITE 1 AC2 2 ASP B 109 GLU C 24 SITE 1 AC3 3 CYS C 111 CYS D 111 ILE D 113 CRYST1 157.412 34.805 115.225 90.00 112.28 90.00 C 1 2 1 16 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 0.006353 0.000000 0.002603 0.00000 SCALE2 0.000000 0.028732 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009379 0.00000