HEADER VIRAL PROTEIN 07-AUG-16 5GQL TITLE CRYSTAL STRUCTURE OF WILD TYPE CYPOVIRUS POLYHEDRA COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYHEDRIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: C-POLYHEDRIN,CYPOVIRUS POLYHEDRIN PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOMBYX MORI CYPOVIRUS 1; SOURCE 3 ORGANISM_COMMON: BMCPV; SOURCE 4 ORGANISM_TAXID: 110829; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS IN VIVO PROTEIN CRYSTAL, POLYHEDRA, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.ABE,H.TABE,H.IJIRI,K.YAMASHITA,K.HIRATA,H.MORI,T.UENO REVDAT 4 08-NOV-23 5GQL 1 LINK REVDAT 3 26-FEB-20 5GQL 1 REMARK REVDAT 2 12-APR-17 5GQL 1 JRNL REVDAT 1 15-FEB-17 5GQL 0 JRNL AUTH S.ABE,H.TABE,H.IJIRI,K.YAMASHITA,K.HIRATA,K.ATSUMI,T.SHIMOI, JRNL AUTH 2 M.AKAI,H.MORI,S.KITAGAWA,T.UENO JRNL TITL CRYSTAL ENGINEERING OF SELF-ASSEMBLED POROUS PROTEIN JRNL TITL 2 MATERIALS IN LIVING CELLS JRNL REF ACS NANO V. 11 2410 2017 JRNL REFN ESSN 1936-086X JRNL PMID 28094987 JRNL DOI 10.1021/ACSNANO.6B06099 REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 16710 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) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 898 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) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1193 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2009 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 67 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 6.93 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): 0.158 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.071 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2145 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2914 ; 1.604 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 250 ; 6.516 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 116 ;37.626 ;23.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 327 ;11.951 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;23.387 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 293 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1678 ; 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): 993 ; 0.379 ; 0.521 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1240 ; 0.654 ; 0.777 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1149 ; 0.928 ; 0.779 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): 3275 ; 2.766 ; 5.327 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 5GQL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1300001273. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-11 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 : SPRING-8 REMARK 200 BEAMLINE : BL32XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.68880 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX325HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17724 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 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 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: NULL REMARK 200 STARTING MODEL: 2OH6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 24.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: IN VIVO CRYSTALLIZATION, IN CELL, REMARK 280 TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 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 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 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 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 51.66400 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 51.66400 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 51.66400 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 51.66400 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 51.66400 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 51.66400 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 64950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 124790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -332.0 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 103.32800 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 103.32800 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT1 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 6 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 6 -1.000000 0.000000 0.000000 103.32800 REMARK 350 BIOMT3 6 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT1 7 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT2 7 -1.000000 0.000000 0.000000 103.32800 REMARK 350 BIOMT3 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT2 8 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT1 9 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 9 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 9 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 10 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT2 10 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 10 -1.000000 0.000000 0.000000 103.32800 REMARK 350 BIOMT1 11 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 11 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT3 11 -1.000000 0.000000 0.000000 103.32800 REMARK 350 BIOMT1 12 0.000000 -1.000000 0.000000 103.32800 REMARK 350 BIOMT2 12 0.000000 0.000000 -1.000000 103.32800 REMARK 350 BIOMT3 12 1.000000 0.000000 0.000000 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 529 LIES ON A SPECIAL POSITION. 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 57 -49.69 76.77 REMARK 500 SER A 131 37.94 72.77 REMARK 500 GLU A 135 -60.95 74.42 REMARK 500 ASN A 185 89.61 -153.39 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 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 305 O1A REMARK 620 2 ATP A 305 O3G 97.8 REMARK 620 3 ATP A 305 O1B 82.1 79.0 REMARK 620 4 HOH A 434 O 165.2 93.2 90.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CTP A 304 O3G REMARK 620 2 CTP A 304 O2A 77.6 REMARK 620 3 CTP A 304 O2B 80.3 84.4 REMARK 620 4 HOH A 519 O 83.2 160.8 94.3 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 CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CTP A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5GQI RELATED DB: PDB REMARK 900 RELATED ID: 5GQJ RELATED DB: PDB REMARK 900 RELATED ID: 5GQK RELATED DB: PDB REMARK 900 RELATED ID: 5GQM RELATED DB: PDB REMARK 900 RELATED ID: 5GQN RELATED DB: PDB DBREF 5GQL A 2 248 UNP P11041 PYHD_CPVBM 2 248 SEQADV 5GQL ACE A 1 UNP P11041 ACETYLATION SEQRES 1 A 248 ACE ALA ASP VAL ALA GLY THR SER ASN ARG ASP PHE ARG SEQRES 2 A 248 GLY ARG GLU GLN ARG LEU PHE ASN SER GLU GLN TYR ASN SEQRES 3 A 248 TYR ASN ASN SER LEU ASN GLY GLU VAL SER VAL TRP VAL SEQRES 4 A 248 TYR ALA TYR TYR SER ASP GLY SER VAL LEU VAL ILE ASN SEQRES 5 A 248 LYS ASN SER GLN TYR LYS VAL GLY ILE SER GLU THR PHE SEQRES 6 A 248 LYS ALA LEU LYS GLU TYR ARG GLU GLY GLN HIS ASN ASP SEQRES 7 A 248 SER TYR ASP GLU TYR GLU VAL ASN GLN SER ILE TYR TYR SEQRES 8 A 248 PRO ASN GLY GLY ASP ALA ARG LYS PHE HIS SER ASN ALA SEQRES 9 A 248 LYS PRO ARG ALA ILE GLN ILE ILE PHE SER PRO SER VAL SEQRES 10 A 248 ASN VAL ARG THR ILE LYS MET ALA LYS GLY ASN ALA VAL SEQRES 11 A 248 SER VAL PRO ASP GLU TYR LEU GLN ARG SER HIS PRO TRP SEQRES 12 A 248 GLU ALA THR GLY ILE LYS TYR ARG LYS ILE LYS ARG ASP SEQRES 13 A 248 GLY GLU ILE VAL GLY TYR SER HIS TYR PHE GLU LEU PRO SEQRES 14 A 248 HIS GLU TYR ASN SER ILE SER LEU ALA VAL SER GLY VAL SEQRES 15 A 248 HIS LYS ASN PRO SER SER TYR ASN VAL GLY SER ALA HIS SEQRES 16 A 248 ASN VAL MET ASP VAL PHE GLN SER CYS ASP LEU ALA LEU SEQRES 17 A 248 ARG PHE CYS ASN ARG TYR TRP ALA GLU LEU GLU LEU VAL SEQRES 18 A 248 ASN HIS TYR ILE SER PRO ASN ALA TYR PRO TYR LEU ASP SEQRES 19 A 248 ILE ASN ASN HIS SER TYR GLY VAL ALA LEU SER ASN ARG SEQRES 20 A 248 GLN HET ACE A 1 3 HET CL A 301 1 HET MG A 302 1 HET MG A 303 1 HET CTP A 304 29 HET ATP A 305 31 HET EDO A 306 4 HETNAM ACE ACETYL GROUP HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM CTP CYTIDINE-5'-TRIPHOSPHATE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 ACE C2 H4 O FORMUL 2 CL CL 1- FORMUL 3 MG 2(MG 2+) FORMUL 5 CTP C9 H16 N3 O14 P3 FORMUL 6 ATP C10 H16 N5 O13 P3 FORMUL 7 EDO C2 H6 O2 FORMUL 8 HOH *132(H2 O) HELIX 1 AA1 ASP A 11 SER A 30 1 20 HELIX 2 AA2 THR A 64 LYS A 69 1 6 HELIX 3 AA3 ASP A 78 TYR A 91 1 14 HELIX 4 AA4 TYR A 136 SER A 140 5 5 HELIX 5 AA5 THR A 146 TYR A 150 5 5 HELIX 6 AA6 ASN A 196 ALA A 207 1 12 HELIX 7 AA7 ALA A 216 TYR A 224 1 9 SHEET 1 AA1 6 ARG A 151 ARG A 155 0 SHEET 2 AA1 6 GLU A 158 GLU A 167 -1 O VAL A 160 N ILE A 153 SHEET 3 AA1 6 ALA A 108 PHE A 113 -1 N ILE A 111 O HIS A 164 SHEET 4 AA1 6 GLU A 34 TYR A 42 -1 N TYR A 40 O GLN A 110 SHEET 5 AA1 6 VAL A 48 GLN A 56 -1 O ILE A 51 N VAL A 39 SHEET 6 AA1 6 LEU A 208 TYR A 214 -1 O PHE A 210 N ASN A 52 SHEET 1 AA2 3 LYS A 58 GLU A 63 0 SHEET 2 AA2 3 SER A 176 HIS A 183 -1 O LEU A 177 N GLU A 63 SHEET 3 AA2 3 VAL A 117 GLY A 127 -1 N ALA A 125 O ALA A 178 SHEET 1 AA3 2 TYR A 232 LEU A 233 0 SHEET 2 AA3 2 SER A 239 TYR A 240 -1 O TYR A 240 N TYR A 232 LINK C ACE A 1 N ALA A 2 1555 1555 1.33 LINK MG MG A 302 O1A ATP A 305 1555 1555 2.02 LINK MG MG A 302 O3G ATP A 305 1555 1555 2.06 LINK MG MG A 302 O1B ATP A 305 1555 1555 2.14 LINK MG MG A 302 O HOH A 434 1555 19554 2.21 LINK MG MG A 303 O3G CTP A 304 1555 1555 2.40 LINK MG MG A 303 O2A CTP A 304 1555 1555 2.29 LINK MG MG A 303 O2B CTP A 304 1555 1555 2.25 LINK MG MG A 303 O HOH A 519 1555 1555 2.11 SITE 1 AC1 3 ALA A 2 LEU A 31 HOH A 500 SITE 1 AC2 2 ATP A 305 HOH A 434 SITE 1 AC3 2 CTP A 304 HOH A 519 SITE 1 AC4 13 HIS A 76 ASN A 77 ASP A 78 SER A 79 SITE 2 AC4 13 TYR A 80 ASP A 81 ASP A 96 ARG A 98 SITE 3 AC4 13 MG A 303 HOH A 419 HOH A 440 HOH A 513 SITE 4 AC4 13 HOH A 519 SITE 1 AC5 11 LYS A 152 LYS A 154 ARG A 155 ASP A 156 SITE 2 AC5 11 GLY A 157 ILE A 159 LYS A 184 MG A 302 SITE 3 AC5 11 HOH A 434 HOH A 471 HOH A 494 SITE 1 AC6 6 ASP A 3 GLY A 46 PHE A 100 ALA A 216 SITE 2 AC6 6 GLU A 217 HOH A 422 CRYST1 103.328 103.328 103.328 90.00 90.00 90.00 I 2 3 24 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 0.009678 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009678 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009678 0.00000 HETATM 1 C ACE A 1 68.359 -10.844 9.502 1.00 13.02 C HETATM 2 O ACE A 1 67.731 -11.193 8.515 1.00 13.95 O HETATM 3 CH3 ACE A 1 69.571 -11.621 9.976 1.00 13.06 C