HEADER METAL BINDING PROTEIN 29-MAR-01 1IBZ TITLE RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROSOCYANIN; COMPND 3 CHAIN: A, B, C, D SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NITROSOMONAS EUROPAEA; SOURCE 3 ORGANISM_TAXID: 915 KEYWDS RED COPPER, CUPREDOXIN, BETA HAIRPIN, NITROSOCYANIN, NITROSOMONAS KEYWDS 2 EUROPAEA, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.L.LIEBERMAN,D.M.ARCIERO,A.B.HOOPER,A.C.ROSENZWEIG REVDAT 4 07-FEB-24 1IBZ 1 REMARK LINK REVDAT 3 31-JAN-18 1IBZ 1 REMARK REVDAT 2 24-FEB-09 1IBZ 1 VERSN REVDAT 1 06-JUN-01 1IBZ 0 JRNL AUTH R.L.LIEBERMAN,D.M.ARCIERO,A.B.HOOPER,A.C.ROSENZWEIG JRNL TITL CRYSTAL STRUCTURE OF A NOVEL RED COPPER PROTEIN FROM JRNL TITL 2 NITROSOMONAS EUROPAEA. JRNL REF BIOCHEMISTRY V. 40 5674 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11341832 JRNL DOI 10.1021/BI0102611 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 281665.480 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 22335 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 SET) : 0.179 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1084 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3299 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 148 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.023 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3424 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 313 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.53000 REMARK 3 B22 (A**2) : 2.90000 REMARK 3 B33 (A**2) : -5.43000 REMARK 3 B12 (A**2) : 3.75000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : 0.24 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.32 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 28.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.740 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.140 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.400 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.270 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.370 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 34.20 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER_REP.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IBZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-01. REMARK 100 THE DEPOSITION ID IS D_1000013143. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-AUG-01 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 : APS REMARK 200 BEAMLINE : 5ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.946 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23593 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.32500 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: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, CITRATE, 1,6-HEXANEDIOL, PH REMARK 280 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 23K, TEMPERATURE REMARK 280 296.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 48.79250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 28.17036 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 94.33667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 48.79250 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 28.17036 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 94.33667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 48.79250 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 28.17036 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 94.33667 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 48.79250 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 28.17036 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 94.33667 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 48.79250 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 28.17036 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 94.33667 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 48.79250 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 28.17036 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 94.33667 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 56.34073 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 188.67333 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 56.34073 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 188.67333 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 56.34073 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 188.67333 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 56.34073 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 188.67333 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 56.34073 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 188.67333 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 56.34073 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 188.67333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: 24-MERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 58670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 96470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -337.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 112.68145 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 94.33667 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 112.68145 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 94.33667 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 112.68145 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 94.33667 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 112.68145 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 94.33667 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 112.68145 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 94.33667 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 112.68145 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 94.33667 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 8 -0.500000 -0.866025 0.000000 97.58500 REMARK 350 BIOMT2 8 0.866025 -0.500000 0.000000 169.02218 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 9 -0.500000 0.866025 0.000000 -97.58500 REMARK 350 BIOMT2 9 -0.866025 -0.500000 0.000000 169.02218 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 10 -0.500000 0.866025 0.000000 -97.58500 REMARK 350 BIOMT2 10 0.866025 0.500000 0.000000 56.34073 REMARK 350 BIOMT3 10 0.000000 0.000000 -1.000000 188.67333 REMARK 350 BIOMT1 11 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 11 0.000000 -1.000000 0.000000 225.36290 REMARK 350 BIOMT3 11 0.000000 0.000000 -1.000000 188.67333 REMARK 350 BIOMT1 12 -0.500000 -0.866025 0.000000 97.58500 REMARK 350 BIOMT2 12 -0.866025 0.500000 0.000000 56.34073 REMARK 350 BIOMT3 12 0.000000 0.000000 -1.000000 188.67333 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 27490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -167.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 112.68145 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 94.33667 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 112.68145 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 94.33667 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 112.68145 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 94.33667 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -0.500000 -0.866025 0.000000 97.58500 REMARK 350 BIOMT2 5 0.866025 -0.500000 0.000000 169.02218 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 -0.500000 0.866025 0.000000 -97.58500 REMARK 350 BIOMT2 6 -0.866025 -0.500000 0.000000 169.02218 REMARK 350 BIOMT3 6 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 GLU A 1 REMARK 465 GLU C 1 REMARK 465 HIS C 2 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 3 101.81 65.17 REMARK 500 ILE B 102 -60.37 -105.68 REMARK 500 GLN C 70 106.46 -171.91 REMARK 500 HIS D 2 11.04 171.19 REMARK 500 ASN D 3 -156.83 -118.17 REMARK 500 GLN D 70 87.34 -150.12 REMARK 500 ILE D 102 -60.28 -108.79 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 CU A 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 60 OE1 REMARK 620 2 CYS A 95 SG 119.9 REMARK 620 3 HIS A 98 ND1 89.2 112.1 REMARK 620 4 HIS A 103 ND1 97.9 100.9 136.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU B 403 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 60 OE1 REMARK 620 2 CYS B 95 SG 129.6 REMARK 620 3 HIS B 98 ND1 94.0 102.3 REMARK 620 4 HIS B 103 ND1 87.8 104.9 142.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU C 404 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 60 OE1 REMARK 620 2 CYS C 95 SG 127.4 REMARK 620 3 HIS C 98 ND1 80.6 109.6 REMARK 620 4 HIS C 103 ND1 99.1 104.9 136.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU D 401 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 60 OE1 REMARK 620 2 CYS D 95 SG 120.5 REMARK 620 3 HIS D 98 ND1 101.5 103.8 REMARK 620 4 HIS D 103 ND1 86.1 99.4 147.2 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 CU D 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU C 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IBY RELATED DB: PDB REMARK 900 RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA REMARK 900 RELATED ID: 1IC0 RELATED DB: PDB REMARK 900 RED COPPER PROTEIN NITROSOCYANIN FROM NITROSOMONAS EUROPAEA DBREF 1IBZ A 1 112 UNP Q820S6 Q820S6_NITEU 25 136 DBREF 1IBZ B 1 112 UNP Q820S6 Q820S6_NITEU 25 136 DBREF 1IBZ C 1 112 UNP Q820S6 Q820S6_NITEU 25 136 DBREF 1IBZ D 1 112 UNP Q820S6 Q820S6_NITEU 25 136 SEQRES 1 A 112 GLU HIS ASN PHE ASN VAL VAL ILE ASN ALA TYR ASP THR SEQRES 2 A 112 THR ILE PRO GLU LEU ASN VAL GLU GLY VAL THR VAL LYS SEQRES 3 A 112 ASN ILE ARG ALA PHE ASN VAL LEU ASN GLU PRO GLU THR SEQRES 4 A 112 LEU VAL VAL LYS LYS GLY ASP ALA VAL LYS VAL VAL VAL SEQRES 5 A 112 GLU ASN LYS SER PRO ILE SER GLU GLY PHE SER ILE ASP SEQRES 6 A 112 ALA PHE GLY VAL GLN GLU VAL ILE LYS ALA GLY GLU THR SEQRES 7 A 112 LYS THR ILE SER PHE THR ALA ASP LYS ALA GLY ALA PHE SEQRES 8 A 112 THR ILE TRP CYS GLN LEU HIS PRO LYS ASN ILE HIS LEU SEQRES 9 A 112 PRO GLY THR LEU ASN VAL VAL GLU SEQRES 1 B 112 GLU HIS ASN PHE ASN VAL VAL ILE ASN ALA TYR ASP THR SEQRES 2 B 112 THR ILE PRO GLU LEU ASN VAL GLU GLY VAL THR VAL LYS SEQRES 3 B 112 ASN ILE ARG ALA PHE ASN VAL LEU ASN GLU PRO GLU THR SEQRES 4 B 112 LEU VAL VAL LYS LYS GLY ASP ALA VAL LYS VAL VAL VAL SEQRES 5 B 112 GLU ASN LYS SER PRO ILE SER GLU GLY PHE SER ILE ASP SEQRES 6 B 112 ALA PHE GLY VAL GLN GLU VAL ILE LYS ALA GLY GLU THR SEQRES 7 B 112 LYS THR ILE SER PHE THR ALA ASP LYS ALA GLY ALA PHE SEQRES 8 B 112 THR ILE TRP CYS GLN LEU HIS PRO LYS ASN ILE HIS LEU SEQRES 9 B 112 PRO GLY THR LEU ASN VAL VAL GLU SEQRES 1 C 112 GLU HIS ASN PHE ASN VAL VAL ILE ASN ALA TYR ASP THR SEQRES 2 C 112 THR ILE PRO GLU LEU ASN VAL GLU GLY VAL THR VAL LYS SEQRES 3 C 112 ASN ILE ARG ALA PHE ASN VAL LEU ASN GLU PRO GLU THR SEQRES 4 C 112 LEU VAL VAL LYS LYS GLY ASP ALA VAL LYS VAL VAL VAL SEQRES 5 C 112 GLU ASN LYS SER PRO ILE SER GLU GLY PHE SER ILE ASP SEQRES 6 C 112 ALA PHE GLY VAL GLN GLU VAL ILE LYS ALA GLY GLU THR SEQRES 7 C 112 LYS THR ILE SER PHE THR ALA ASP LYS ALA GLY ALA PHE SEQRES 8 C 112 THR ILE TRP CYS GLN LEU HIS PRO LYS ASN ILE HIS LEU SEQRES 9 C 112 PRO GLY THR LEU ASN VAL VAL GLU SEQRES 1 D 112 GLU HIS ASN PHE ASN VAL VAL ILE ASN ALA TYR ASP THR SEQRES 2 D 112 THR ILE PRO GLU LEU ASN VAL GLU GLY VAL THR VAL LYS SEQRES 3 D 112 ASN ILE ARG ALA PHE ASN VAL LEU ASN GLU PRO GLU THR SEQRES 4 D 112 LEU VAL VAL LYS LYS GLY ASP ALA VAL LYS VAL VAL VAL SEQRES 5 D 112 GLU ASN LYS SER PRO ILE SER GLU GLY PHE SER ILE ASP SEQRES 6 D 112 ALA PHE GLY VAL GLN GLU VAL ILE LYS ALA GLY GLU THR SEQRES 7 D 112 LYS THR ILE SER PHE THR ALA ASP LYS ALA GLY ALA PHE SEQRES 8 D 112 THR ILE TRP CYS GLN LEU HIS PRO LYS ASN ILE HIS LEU SEQRES 9 D 112 PRO GLY THR LEU ASN VAL VAL GLU HET CU A 402 1 HET CU B 403 1 HET CU C 404 1 HET CU D 401 1 HETNAM CU COPPER (II) ION FORMUL 5 CU 4(CU 2+) FORMUL 9 HOH *313(H2 O) HELIX 1 1 ASP A 65 GLY A 68 5 4 HELIX 2 2 ASP B 65 GLY B 68 5 4 HELIX 3 3 ASP C 65 GLY C 68 5 4 HELIX 4 4 ASP D 65 GLY D 68 5 4 SHEET 1 A 4 VAL A 23 GLU A 36 0 SHEET 2 A 4 PHE A 4 VAL A 20 -1 N VAL A 7 O GLU A 36 SHEET 3 A 4 ALA A 47 ASN A 54 1 O LYS A 49 N PHE A 4 SHEET 4 A 4 THR A 78 THR A 84 -1 O LYS A 79 N VAL A 52 SHEET 1 B 3 THR A 39 LYS A 43 0 SHEET 2 B 3 GLY A 106 VAL A 111 1 O THR A 107 N LEU A 40 SHEET 3 B 3 GLY A 89 ILE A 93 -1 O GLY A 89 N VAL A 110 SHEET 1 C 2 GLU A 60 ILE A 64 0 SHEET 2 C 2 VAL A 69 ILE A 73 -1 O VAL A 69 N ILE A 64 SHEET 1 D 4 VAL B 23 GLU B 36 0 SHEET 2 D 4 PHE B 4 VAL B 20 -1 N VAL B 7 O GLU B 36 SHEET 3 D 4 ALA B 47 ASN B 54 1 O LYS B 49 N PHE B 4 SHEET 4 D 4 THR B 78 THR B 84 -1 O LYS B 79 N VAL B 52 SHEET 1 E 3 THR B 39 LYS B 43 0 SHEET 2 E 3 GLY B 106 VAL B 111 1 O THR B 107 N LEU B 40 SHEET 3 E 3 GLY B 89 ILE B 93 -1 O GLY B 89 N VAL B 110 SHEET 1 F 2 GLU B 60 ILE B 64 0 SHEET 2 F 2 VAL B 69 ILE B 73 -1 O VAL B 69 N ILE B 64 SHEET 1 G 4 VAL C 23 GLU C 36 0 SHEET 2 G 4 PHE C 4 VAL C 20 -1 N VAL C 7 O GLU C 36 SHEET 3 G 4 ALA C 47 ASN C 54 1 O LYS C 49 N PHE C 4 SHEET 4 G 4 THR C 78 THR C 84 -1 O LYS C 79 N VAL C 52 SHEET 1 H 3 THR C 39 LYS C 43 0 SHEET 2 H 3 GLY C 106 VAL C 111 1 O THR C 107 N LEU C 40 SHEET 3 H 3 GLY C 89 ILE C 93 -1 O GLY C 89 N VAL C 110 SHEET 1 I 2 GLU C 60 ILE C 64 0 SHEET 2 I 2 VAL C 69 ILE C 73 -1 N VAL C 69 O ILE C 64 SHEET 1 J 4 VAL D 23 GLU D 36 0 SHEET 2 J 4 PHE D 4 VAL D 20 -1 N VAL D 7 O GLU D 36 SHEET 3 J 4 ALA D 47 ASN D 54 1 O LYS D 49 N PHE D 4 SHEET 4 J 4 THR D 78 THR D 84 -1 O LYS D 79 N VAL D 52 SHEET 1 K 3 THR D 39 LYS D 43 0 SHEET 2 K 3 GLY D 106 VAL D 111 1 O THR D 107 N LEU D 40 SHEET 3 K 3 GLY D 89 ILE D 93 -1 O GLY D 89 N VAL D 110 SHEET 1 L 2 GLU D 60 ILE D 64 0 SHEET 2 L 2 VAL D 69 ILE D 73 -1 O VAL D 69 N ILE D 64 LINK OE1 GLU A 60 CU CU A 402 1555 1555 2.02 LINK SG CYS A 95 CU CU A 402 1555 1555 2.24 LINK ND1 HIS A 98 CU CU A 402 1555 1555 2.42 LINK ND1 HIS A 103 CU CU A 402 1555 1555 1.95 LINK OE1 GLU B 60 CU CU B 403 1555 1555 2.01 LINK SG CYS B 95 CU CU B 403 1555 1555 2.27 LINK ND1 HIS B 98 CU CU B 403 1555 1555 2.38 LINK ND1 HIS B 103 CU CU B 403 1555 1555 2.01 LINK OE1 GLU C 60 CU CU C 404 1555 1555 1.93 LINK SG CYS C 95 CU CU C 404 1555 1555 2.24 LINK ND1 HIS C 98 CU CU C 404 1555 1555 2.61 LINK ND1 HIS C 103 CU CU C 404 1555 1555 2.03 LINK OE1 GLU D 60 CU CU D 401 1555 1555 2.10 LINK SG CYS D 95 CU CU D 401 1555 1555 2.26 LINK ND1 HIS D 98 CU CU D 401 1555 1555 2.12 LINK ND1 HIS D 103 CU CU D 401 1555 1555 2.09 CISPEP 1 GLU A 36 PRO A 37 0 0.04 CISPEP 2 GLU B 36 PRO B 37 0 -0.15 CISPEP 3 GLU C 36 PRO C 37 0 -0.08 CISPEP 4 GLU D 36 PRO D 37 0 -0.23 SITE 1 AC1 4 GLU D 60 CYS D 95 HIS D 98 HIS D 103 SITE 1 AC2 4 GLU A 60 CYS A 95 HIS A 98 HIS A 103 SITE 1 AC3 4 GLU B 60 CYS B 95 HIS B 98 HIS B 103 SITE 1 AC4 4 GLU C 60 CYS C 95 HIS C 98 HIS C 103 CRYST1 97.585 97.585 283.010 90.00 90.00 120.00 H 3 2 72 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 0.010247 0.005916 0.000000 0.00000 SCALE2 0.000000 0.011833 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003533 0.00000