HEADER VIRAL PROTEIN 11-SEP-14 4V08 TITLE INHIBITED DIMERIC PSEUDORABIES VIRUS PROTEASE PUL26N AT 2 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: UL26; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-224; COMPND 5 SYNONYM: PSEUDORABIES VIRUS PROTEASE; COMPND 6 EC: 3.4.21.97; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: N-TERMINAL (HIS)6-TAG WITH THROMBIN-LINKER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUID HERPESVIRUS 1; SOURCE 3 ORGANISM_COMMON: PSEUDORABIES VIRUS; SOURCE 4 ORGANISM_TAXID: 10345; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS VIRAL PROTEIN, ASSEMBLIN, UL26, UL26P, SERINE PROTEASE, PROTEASE, KEYWDS 2 SUID, PRV, HERPES, HERPES VIRUS EXPDTA X-RAY DIFFRACTION AUTHOR M.ZUEHLSDORF,S.WERTEN,G.J.PALM,W.HINRICHS REVDAT 4 10-JAN-24 4V08 1 REMARK REVDAT 3 11-APR-18 4V08 1 REMARK HELIX SHEET LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 22-JUL-15 4V08 1 JRNL REVDAT 1 15-JUL-15 4V08 0 JRNL AUTH M.ZUEHLSDORF,S.WERTEN,B.G.KLUPP,G.J.PALM,T.METTENLEITER, JRNL AUTH 2 W.HINRICHS JRNL TITL DIMERIZATION-INDUCED ALLOSTERIC CHANGES OF THE OXYANION-HOLE JRNL TITL 2 LOOP ACTIVATE THE PSEUDORABIES VIRUS ASSEMBLIN PUL26N, A JRNL TITL 3 HERPESVIRUS SERINE PROTEASE JRNL REF PLOS PATHOG. V. 11 5045 2015 JRNL REFN ISSN 1553-7366 JRNL PMID 26161660 JRNL DOI 10.1371/JOURNAL.PPAT.1005045 REMARK 2 REMARK 2 RESOLUTION. 2.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 27886 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1433 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) : 2.03 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2047 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3306 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 263 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.72000 REMARK 3 B22 (A**2) : -0.71000 REMARK 3 B33 (A**2) : -1.01000 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): 0.181 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.174 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.137 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.813 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3396 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3289 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4624 ; 1.763 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7503 ; 0.879 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 436 ; 5.903 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;32.658 ;21.781 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 512 ;14.861 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;16.034 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 533 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3852 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 768 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1747 ; 1.847 ; 2.176 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1746 ; 1.846 ; 2.175 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2179 ; 2.809 ; 3.248 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1649 ; 2.582 ; 2.511 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 : 2 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 300 REMARK 3 ORIGIN FOR THE GROUP (A): -14.0720 -35.2948 39.0007 REMARK 3 T TENSOR REMARK 3 T11: 0.0398 T22: 0.0112 REMARK 3 T33: 0.0822 T12: 0.0086 REMARK 3 T13: 0.0381 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 1.4774 L22: 1.1720 REMARK 3 L33: 3.3549 L12: 1.0489 REMARK 3 L13: -1.3787 L23: -1.2771 REMARK 3 S TENSOR REMARK 3 S11: 0.1312 S12: 0.0231 S13: 0.2494 REMARK 3 S21: 0.1602 S22: 0.0603 S23: 0.2719 REMARK 3 S31: -0.1408 S32: -0.1119 S33: -0.1916 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 : B 1 B 300 REMARK 3 ORIGIN FOR THE GROUP (A): 9.5084 -28.8757 13.4219 REMARK 3 T TENSOR REMARK 3 T11: 0.1241 T22: 0.0178 REMARK 3 T33: 0.0312 T12: -0.0249 REMARK 3 T13: 0.0131 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 1.9901 L22: 1.4004 REMARK 3 L33: 1.2783 L12: 0.7593 REMARK 3 L13: -0.0560 L23: -0.1375 REMARK 3 S TENSOR REMARK 3 S11: -0.0822 S12: 0.0561 S13: -0.1302 REMARK 3 S21: -0.2244 S22: 0.0984 S23: -0.1107 REMARK 3 S31: 0.0339 S32: 0.0435 S33: -0.0162 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. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U REMARK 3 VALUES WITH TLS ADDED, RESIDUES 1,46,218 OF CHAIN A AND RESIDUES REMARK 3 19,84,114,169,218 OF CHAIN B MODELED AS ALA AND RESIDUES 156 AND REMARK 3 169 FROM CHAIN A SHORTENED DUE TO INSUFFICIENT ELECTRON DENSITY, REMARK 3 TAG AND THROMBIN-LINKER OF BOTH CHAINS AND RESIDUES 115-119 AND REMARK 3 219-224 OF CHAIN A ARE DISORDERED REMARK 4 REMARK 4 4V08 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1290061592. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29319 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.030 REMARK 200 RESOLUTION RANGE LOW (A) : 62.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.78000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 4V07 REMARK 200 REMARK 200 REMARK: NO PHASING WAS NECESSARY SINCE THE CRYSTAL OF THE MODEL REMARK 200 AND THE ONE USED FOR THIS DATASET WERE ISOMORPHOUS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION WAS INCUBATED WITH 5 REMARK 280 MM DFP FOR 1 HOUR, THEN CRYSTALLIZED FROM 0.1 M TRIS/HCL PH 8, REMARK 280 0.2 M MGCL2, 20% PEG 8000 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.03100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.52750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.11300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.52750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.03100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.11300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.8 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 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 LEU A 115 REMARK 465 ALA A 116 REMARK 465 PRO A 117 REMARK 465 GLY A 118 REMARK 465 GLU A 119 REMARK 465 GLY A 219 REMARK 465 HIS A 220 REMARK 465 THR A 221 REMARK 465 TYR A 222 REMARK 465 LEU A 223 REMARK 465 GLN A 224 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 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 MET A 1 CG SD CE REMARK 470 ARG A 46 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 114 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 156 CZ NH1 NH2 REMARK 470 ARG A 169 CZ NH1 NH2 REMARK 470 ARG A 218 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 19 CG CD OE1 OE2 REMARK 470 ASP B 84 CG OD1 OD2 REMARK 470 ARG B 114 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 169 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 218 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 B 204 NE - CZ - NH2 ANGL. DEV. = -3.1 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 CYS A 47 42.65 -142.29 REMARK 500 THR A 140 42.28 -83.65 REMARK 500 CYS B 47 55.35 -141.79 REMARK 500 THR B 140 40.82 -93.17 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 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 467 O REMARK 620 2 HOH B 410 O 94.8 REMARK 620 3 HOH B 526 O 149.4 97.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DFP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide DFP B 301 and SER B REMARK 800 109 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4V07 RELATED DB: PDB REMARK 900 DIMERIC PSEUDORABIES VIRUS PROTEASE PUL26N AT 2.1 A RESOLUTION REMARK 900 RELATED ID: 4V0T RELATED DB: PDB REMARK 900 MONOMERIC PSEUDORABIES VIRUS PROTEASE PUL26N AT 2.1 A RESOLUTION REMARK 900 RELATED ID: 4CX8 RELATED DB: PDB REMARK 900 MONOMERIC PSEUDORABIES VIRUS PROTEASE PUL26N AT 2.5 A RESOLUTION REMARK 999 REMARK 999 SEQUENCE REMARK 999 ASSEMBLIN-PART CRYSTALLIZED (RES. 1-224) DBREF 4V08 A 1 224 UNP Q83417 Q83417_9ALPH 1 224 DBREF 4V08 B 1 224 UNP Q83417 Q83417_9ALPH 1 224 SEQADV 4V08 MET A -19 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY A -18 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER A -17 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER A -16 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -15 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -14 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -13 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -12 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -11 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A -10 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER A -9 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER A -8 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY A -7 UNP Q83417 EXPRESSION TAG SEQADV 4V08 LEU A -6 UNP Q83417 EXPRESSION TAG SEQADV 4V08 VAL A -5 UNP Q83417 EXPRESSION TAG SEQADV 4V08 PRO A -4 UNP Q83417 EXPRESSION TAG SEQADV 4V08 ARG A -3 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY A -2 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER A -1 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS A 0 UNP Q83417 EXPRESSION TAG SEQADV 4V08 MET B -19 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY B -18 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER B -17 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER B -16 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -15 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -14 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -13 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -12 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -11 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B -10 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER B -9 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER B -8 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY B -7 UNP Q83417 EXPRESSION TAG SEQADV 4V08 LEU B -6 UNP Q83417 EXPRESSION TAG SEQADV 4V08 VAL B -5 UNP Q83417 EXPRESSION TAG SEQADV 4V08 PRO B -4 UNP Q83417 EXPRESSION TAG SEQADV 4V08 ARG B -3 UNP Q83417 EXPRESSION TAG SEQADV 4V08 GLY B -2 UNP Q83417 EXPRESSION TAG SEQADV 4V08 SER B -1 UNP Q83417 EXPRESSION TAG SEQADV 4V08 HIS B 0 UNP Q83417 EXPRESSION TAG SEQRES 1 A 244 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 244 LEU VAL PRO ARG GLY SER HIS MET GLY PRO VAL TYR VAL SEQRES 3 A 244 SER GLY TYR LEU ALA LEU TYR ASP ARG ASP GLY GLY GLU SEQRES 4 A 244 LEU ALA LEU THR ARG GLU ILE VAL ALA ALA ALA LEU PRO SEQRES 5 A 244 PRO ALA GLY PRO LEU PRO ILE ASN ILE ASP HIS ARG PRO SEQRES 6 A 244 ARG CYS ASP ILE GLY ALA VAL LEU ALA VAL VAL ASP ASP SEQRES 7 A 244 ASP ARG GLY PRO PHE PHE LEU GLY VAL VAL ASN CYS PRO SEQRES 8 A 244 GLN LEU GLY ALA VAL LEU ALA ARG ALA VAL GLY PRO ASP SEQRES 9 A 244 PHE PHE GLY ASP MET ARG LEU SER ASP GLU GLU ARG LEU SEQRES 10 A 244 LEU TYR LEU LEU SER ASN TYR LEU PRO SER ALA SER LEU SEQRES 11 A 244 SER SER ARG ARG LEU ALA PRO GLY GLU ALA PRO ASP GLU SEQRES 12 A 244 THR LEU PHE ALA HIS VAL ALA LEU CYS VAL ILE GLY ARG SEQRES 13 A 244 ARG VAL GLY THR ILE VAL VAL TYR ASP ALA SER PRO GLU SEQRES 14 A 244 ALA ALA VAL ALA PRO PHE ARG GLN LEU SER ALA ARG ALA SEQRES 15 A 244 ARG SER GLU LEU LEU ALA ARG ALA ALA GLU SER PRO ASP SEQRES 16 A 244 ARG GLU ARG VAL TRP HIS MET SER GLU GLU ALA LEU THR SEQRES 17 A 244 ARG ALA LEU LEU SER THR ALA VAL ASN ASN MET LEU LEU SEQRES 18 A 244 ARG ASP ARG TRP GLU LEU VAL ALA ALA ARG ARG ARG GLU SEQRES 19 A 244 ALA GLY VAL ARG GLY HIS THR TYR LEU GLN SEQRES 1 B 244 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 244 LEU VAL PRO ARG GLY SER HIS MET GLY PRO VAL TYR VAL SEQRES 3 B 244 SER GLY TYR LEU ALA LEU TYR ASP ARG ASP GLY GLY GLU SEQRES 4 B 244 LEU ALA LEU THR ARG GLU ILE VAL ALA ALA ALA LEU PRO SEQRES 5 B 244 PRO ALA GLY PRO LEU PRO ILE ASN ILE ASP HIS ARG PRO SEQRES 6 B 244 ARG CYS ASP ILE GLY ALA VAL LEU ALA VAL VAL ASP ASP SEQRES 7 B 244 ASP ARG GLY PRO PHE PHE LEU GLY VAL VAL ASN CYS PRO SEQRES 8 B 244 GLN LEU GLY ALA VAL LEU ALA ARG ALA VAL GLY PRO ASP SEQRES 9 B 244 PHE PHE GLY ASP MET ARG LEU SER ASP GLU GLU ARG LEU SEQRES 10 B 244 LEU TYR LEU LEU SER ASN TYR LEU PRO SER ALA SER LEU SEQRES 11 B 244 SER SER ARG ARG LEU ALA PRO GLY GLU ALA PRO ASP GLU SEQRES 12 B 244 THR LEU PHE ALA HIS VAL ALA LEU CYS VAL ILE GLY ARG SEQRES 13 B 244 ARG VAL GLY THR ILE VAL VAL TYR ASP ALA SER PRO GLU SEQRES 14 B 244 ALA ALA VAL ALA PRO PHE ARG GLN LEU SER ALA ARG ALA SEQRES 15 B 244 ARG SER GLU LEU LEU ALA ARG ALA ALA GLU SER PRO ASP SEQRES 16 B 244 ARG GLU ARG VAL TRP HIS MET SER GLU GLU ALA LEU THR SEQRES 17 B 244 ARG ALA LEU LEU SER THR ALA VAL ASN ASN MET LEU LEU SEQRES 18 B 244 ARG ASP ARG TRP GLU LEU VAL ALA ALA ARG ARG ARG GLU SEQRES 19 B 244 ALA GLY VAL ARG GLY HIS THR TYR LEU GLN HET DFP A 301 10 HET CL A 302 1 HET CL A 303 1 HET MG A 304 1 HET DFP B 301 10 HET CL B 302 1 HETNAM DFP DIISOPROPYL PHOSPHONATE HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION FORMUL 3 DFP 2(C6 H15 O3 P) FORMUL 4 CL 3(CL 1-) FORMUL 6 MG MG 2+ FORMUL 9 HOH *263(H2 O) HELIX 1 AA1 GLY A 17 ALA A 21 5 5 HELIX 2 AA2 THR A 23 LEU A 31 1 9 HELIX 3 AA3 CYS A 70 VAL A 81 1 12 HELIX 4 AA4 SER A 92 LEU A 105 1 14 HELIX 5 AA5 SER A 147 ALA A 153 1 7 HELIX 6 AA6 SER A 159 SER A 173 1 15 HELIX 7 AA7 SER A 183 MET A 199 1 17 HELIX 8 AA8 ASP A 203 GLY A 216 1 14 HELIX 9 AA9 GLY B 17 ALA B 21 5 5 HELIX 10 AB1 THR B 23 LEU B 31 1 9 HELIX 11 AB2 CYS B 70 VAL B 81 1 12 HELIX 12 AB3 SER B 92 LEU B 105 1 14 HELIX 13 AB4 SER B 147 ALA B 153 1 7 HELIX 14 AB5 SER B 159 GLU B 172 1 14 HELIX 15 AB6 SER B 183 MET B 199 1 17 HELIX 16 AB7 ASP B 203 GLY B 216 1 14 SHEET 1 AA1 7 SER A 107 SER A 112 0 SHEET 2 AA1 7 PHE A 126 CYS A 132 -1 O ALA A 127 N SER A 111 SHEET 3 AA1 7 PRO A 38 ILE A 41 1 N ASN A 40 O LEU A 131 SHEET 4 AA1 7 ASP A 48 ASP A 58 -1 O ILE A 49 N ILE A 39 SHEET 5 AA1 7 GLY A 61 VAL A 68 -1 O LEU A 65 N LEU A 53 SHEET 6 AA1 7 VAL A 4 TYR A 9 -1 N VAL A 6 O GLY A 66 SHEET 7 AA1 7 VAL A 143 ASP A 145 -1 O ASP A 145 N TYR A 5 SHEET 1 AA2 7 SER B 107 SER B 112 0 SHEET 2 AA2 7 PHE B 126 CYS B 132 -1 O ALA B 127 N SER B 111 SHEET 3 AA2 7 PRO B 38 ILE B 41 1 N PRO B 38 O VAL B 129 SHEET 4 AA2 7 ASP B 48 ASP B 58 -1 O ILE B 49 N ILE B 39 SHEET 5 AA2 7 GLY B 61 VAL B 68 -1 O PHE B 63 N VAL B 56 SHEET 6 AA2 7 VAL B 4 TYR B 9 -1 N VAL B 6 O GLY B 66 SHEET 7 AA2 7 VAL B 143 ASP B 145 -1 O ASP B 145 N TYR B 5 LINK OG SER A 109 P DFP A 301 1555 1555 1.51 LINK OG SER B 109 P DFP B 301 1555 1555 1.53 LINK MG MG A 304 O HOH A 467 1555 1555 2.17 LINK MG MG A 304 O HOH B 410 1555 3545 2.43 LINK MG MG A 304 O HOH B 526 1555 3545 2.10 CISPEP 1 LEU A 31 PRO A 32 0 -1.32 CISPEP 2 LEU B 31 PRO B 32 0 -2.31 SITE 1 AC1 8 LEU A 20 HIS A 43 SER A 109 LEU A 110 SITE 2 AC1 8 ILE A 134 GLY A 135 ARG A 136 HOH A 439 SITE 1 AC2 2 ARG A 161 SER B 183 SITE 1 AC3 6 ASP A 203 ARG A 204 TRP A 205 HOH A 511 SITE 2 AC3 6 ASP B 203 HOH B 427 SITE 1 AC4 4 ASP A 145 HOH A 467 HOH B 410 HOH B 526 SITE 1 AC5 5 ASP A 203 ASP B 203 ARG B 204 TRP B 205 SITE 2 AC5 5 HOH B 507 SITE 1 AC6 11 LEU B 20 HIS B 43 ALA B 108 LEU B 110 SITE 2 AC6 11 SER B 111 VAL B 129 ALA B 130 ILE B 134 SITE 3 AC6 11 GLY B 135 ARG B 136 HOH B 481 CRYST1 52.062 76.226 111.055 90.00 90.00 90.00 P 21 21 21 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 0.019208 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013119 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009005 0.00000 MTRIX1 1 0.091450 0.024090 0.995500 -27.38000 1 MTRIX2 1 0.170300 -0.985400 0.008192 -61.50000 1 MTRIX3 1 0.981100 0.168800 -0.094210 36.52000 1