HEADER VIRAL PROTEIN 07-APR-12 4EJR TITLE CRYSTAL STRUCTURE OF MAJOR CAPSID PROTEIN S DOMAIN FROM RABBIT TITLE 2 HEMORRHAGIC DISEASE VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR CAPSID PROTEIN VP60; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: S (INNER SHELL) DOMAIN (UNP RESIDUES 1-230); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RABBIT HEMORRHAGIC DISEASE VIRUS; SOURCE 3 ORGANISM_COMMON: RHDV; SOURCE 4 ORGANISM_TAXID: 11976; SOURCE 5 STRAIN: JX/CHA/97; SOURCE 6 GENE: VP60; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PEXS-DH KEYWDS VIRAL PROTEIN, CAPSID PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR F.XU,J.MA,K.ZHANG,X.WANG,F.SUN REVDAT 4 13-SEP-23 4EJR 1 SEQADV REVDAT 3 15-NOV-17 4EJR 1 REMARK REVDAT 2 06-FEB-13 4EJR 1 JRNL REVDAT 1 30-JAN-13 4EJR 0 JRNL AUTH X.WANG,F.XU,J.LIU,B.GAO,Y.LIU,Y.ZHAI,J.MA,K.ZHANG,T.S.BAKER, JRNL AUTH 2 K.SCHULTEN,D.ZHENG,H.PANG,F.SUN JRNL TITL ATOMIC MODEL OF RABBIT HEMORRHAGIC DISEASE VIRUS BY JRNL TITL 2 CRYO-ELECTRON MICROSCOPY AND CRYSTALLOGRAPHY. JRNL REF PLOS PATHOG. V. 9 03132 2013 JRNL REFN ISSN 1553-7366 JRNL PMID 23341770 JRNL DOI 10.1371/JOURNAL.PPAT.1003132 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 24813 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1330 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1769 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2520 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 78 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.03000 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): 0.173 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.159 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2600 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3570 ; 2.109 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 324 ; 6.654 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 114 ;39.424 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 356 ;15.480 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;14.489 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 396 ; 0.172 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2052 ; 0.012 ; 0.022 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): 1630 ; 1.559 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2666 ; 2.631 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 970 ; 3.820 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 904 ; 5.925 ; 4.500 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 : 1.40 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 4EJR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-12. REMARK 100 THE DEPOSITION ID IS D_1000071705. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24815 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.40400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.970 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2GH8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 0.1 M HEPES REMARK 280 SODIUM, 30% PEG400, PH 7.0, VAPOR DIFFUSION, TEMPERATURE 289K 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 62.86700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.18100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 62.86700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.18100 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: 980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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: 1130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 BIOMT1 2 -1.000000 0.000000 0.000000 12.37786 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -63.97660 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 -24 REMARK 465 GLY A -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 GLU A -11 REMARK 465 ASN A -10 REMARK 465 LEU A -9 REMARK 465 TYR A -8 REMARK 465 PHE A -7 REMARK 465 GLN A -6 REMARK 465 GLY A -5 REMARK 465 SER A -4 REMARK 465 LYS A -3 REMARK 465 LEU A -2 REMARK 465 GLU A -1 REMARK 465 PHE A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 GLY A 3 REMARK 465 LYS A 4 REMARK 465 THR A 5 REMARK 465 ARG A 6 REMARK 465 THR A 7 REMARK 465 ALA A 8 REMARK 465 PRO A 9 REMARK 465 GLN A 10 REMARK 465 GLY A 11 REMARK 465 GLU A 12 REMARK 465 ALA A 13 REMARK 465 ALA A 14 REMARK 465 GLY A 15 REMARK 465 THR A 16 REMARK 465 ALA A 17 REMARK 465 THR A 18 REMARK 465 THR A 19 REMARK 465 ALA A 20 REMARK 465 SER A 21 REMARK 465 VAL A 22 REMARK 465 PRO A 23 REMARK 465 GLY A 24 REMARK 465 THR A 25 REMARK 465 THR A 26 REMARK 465 THR A 27 REMARK 465 ASP A 28 REMARK 465 GLY A 29 REMARK 465 MET A 30 REMARK 465 ASP A 31 REMARK 465 PRO A 32 REMARK 465 GLY A 33 REMARK 465 VAL A 34 REMARK 465 VAL A 35 REMARK 465 ALA A 36 REMARK 465 ALA A 37 REMARK 465 THR A 38 REMARK 465 SER A 39 REMARK 465 VAL A 40 REMARK 465 VAL A 41 REMARK 465 THR A 42 REMARK 465 ALA A 43 REMARK 465 GLU A 44 REMARK 465 ASN A 45 REMARK 465 SER A 46 REMARK 465 SER A 47 REMARK 465 ALA A 48 REMARK 465 SER A 49 REMARK 465 VAL A 50 REMARK 465 ALA A 51 REMARK 465 THR A 52 REMARK 465 ALA A 53 REMARK 465 GLY A 54 REMARK 465 ILE A 55 REMARK 465 GLY A 56 REMARK 465 GLY A 57 REMARK 465 PRO A 58 REMARK 465 PRO A 59 REMARK 465 GLN A 60 REMARK 465 GLN A 61 REMARK 465 VAL A 62 REMARK 465 ASP A 63 REMARK 465 GLN A 64 REMARK 465 GLN A 65 REMARK 465 GLU A 66 REMARK 465 SER A 230 REMARK 465 MET B -24 REMARK 465 GLY B -23 REMARK 465 HIS B -22 REMARK 465 HIS B -21 REMARK 465 HIS B -20 REMARK 465 HIS B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 SER B -14 REMARK 465 SER B -13 REMARK 465 GLY B -12 REMARK 465 GLU B -11 REMARK 465 ASN B -10 REMARK 465 LEU B -9 REMARK 465 TYR B -8 REMARK 465 PHE B -7 REMARK 465 GLN B -6 REMARK 465 GLY B -5 REMARK 465 SER B -4 REMARK 465 LYS B -3 REMARK 465 LEU B -2 REMARK 465 GLU B -1 REMARK 465 PHE B 0 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 GLY B 3 REMARK 465 LYS B 4 REMARK 465 THR B 5 REMARK 465 ARG B 6 REMARK 465 THR B 7 REMARK 465 ALA B 8 REMARK 465 PRO B 9 REMARK 465 GLN B 10 REMARK 465 GLY B 11 REMARK 465 GLU B 12 REMARK 465 ALA B 13 REMARK 465 ALA B 14 REMARK 465 GLY B 15 REMARK 465 THR B 16 REMARK 465 ALA B 17 REMARK 465 THR B 18 REMARK 465 THR B 19 REMARK 465 ALA B 20 REMARK 465 SER B 21 REMARK 465 VAL B 22 REMARK 465 PRO B 23 REMARK 465 GLY B 24 REMARK 465 THR B 25 REMARK 465 THR B 26 REMARK 465 THR B 27 REMARK 465 ASP B 28 REMARK 465 GLY B 29 REMARK 465 MET B 30 REMARK 465 ASP B 31 REMARK 465 PRO B 32 REMARK 465 GLY B 33 REMARK 465 VAL B 34 REMARK 465 VAL B 35 REMARK 465 ALA B 36 REMARK 465 ALA B 37 REMARK 465 THR B 38 REMARK 465 SER B 39 REMARK 465 VAL B 40 REMARK 465 VAL B 41 REMARK 465 THR B 42 REMARK 465 ALA B 43 REMARK 465 GLU B 44 REMARK 465 ASN B 45 REMARK 465 SER B 46 REMARK 465 SER B 47 REMARK 465 ALA B 48 REMARK 465 SER B 49 REMARK 465 VAL B 50 REMARK 465 ALA B 51 REMARK 465 THR B 52 REMARK 465 ALA B 53 REMARK 465 GLY B 54 REMARK 465 ILE B 55 REMARK 465 GLY B 56 REMARK 465 GLY B 57 REMARK 465 PRO B 58 REMARK 465 PRO B 59 REMARK 465 GLN B 60 REMARK 465 GLN B 61 REMARK 465 VAL B 62 REMARK 465 ASP B 63 REMARK 465 GLN B 64 REMARK 465 GLN B 65 REMARK 465 GLU B 66 REMARK 465 SER B 230 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 VAL B 156 CB VAL B 156 CG1 0.130 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 172 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 LEU A 192 CA - CB - CG ANGL. DEV. = -17.2 DEGREES REMARK 500 LEU B 148 CA - CB - CG ANGL. DEV. = 14.0 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 ASP A 76 -178.39 -171.50 REMARK 500 ALA A 124 59.45 -92.24 REMARK 500 PRO A 139 152.58 -48.08 REMARK 500 PRO A 175 -8.75 -59.76 REMARK 500 PHE A 202 -165.32 63.65 REMARK 500 MET A 225 86.77 63.80 REMARK 500 SER B 96 146.58 -176.31 REMARK 500 PRO B 146 116.91 -30.26 REMARK 500 ASP B 183 72.22 -154.63 REMARK 500 SER B 205 -126.08 131.17 REMARK 500 MET B 225 77.59 62.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EGT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF P DOMAIN OF MAJOR CAPSID PROTEIN VP60 FROM REMARK 900 RABBIT HEMORRHAGIC DISEASE VIRUS REMARK 900 RELATED ID: 4J1P RELATED DB: PDB REMARK 900 ATOMIC MODEL OF RABBIT HEMORRHAGIC DISEASE VIRUS DBREF 4EJR A 1 230 UNP Q3HNQ1 Q3HNQ1_RHDV 1 230 DBREF 4EJR B 1 230 UNP Q3HNQ1 Q3HNQ1_RHDV 1 230 SEQADV 4EJR MET A -24 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY A -23 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -22 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -21 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -20 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -19 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -18 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -17 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -16 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS A -15 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER A -14 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER A -13 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY A -12 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLU A -11 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR ASN A -10 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LEU A -9 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR TYR A -8 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR PHE A -7 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLN A -6 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY A -5 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER A -4 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LYS A -3 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LEU A -2 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLU A -1 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR PHE A 0 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR MET B -24 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY B -23 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -22 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -21 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -20 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -19 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -18 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -17 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -16 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR HIS B -15 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER B -14 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER B -13 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY B -12 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLU B -11 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR ASN B -10 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LEU B -9 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR TYR B -8 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR PHE B -7 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLN B -6 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLY B -5 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR SER B -4 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LYS B -3 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR LEU B -2 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR GLU B -1 UNP Q3HNQ1 EXPRESSION TAG SEQADV 4EJR PHE B 0 UNP Q3HNQ1 EXPRESSION TAG SEQRES 1 A 255 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 255 GLU ASN LEU TYR PHE GLN GLY SER LYS LEU GLU PHE MET SEQRES 3 A 255 GLU GLY LYS THR ARG THR ALA PRO GLN GLY GLU ALA ALA SEQRES 4 A 255 GLY THR ALA THR THR ALA SER VAL PRO GLY THR THR THR SEQRES 5 A 255 ASP GLY MET ASP PRO GLY VAL VAL ALA ALA THR SER VAL SEQRES 6 A 255 VAL THR ALA GLU ASN SER SER ALA SER VAL ALA THR ALA SEQRES 7 A 255 GLY ILE GLY GLY PRO PRO GLN GLN VAL ASP GLN GLN GLU SEQRES 8 A 255 THR TRP ARG THR ASN PHE TYR TYR ASN ASP VAL PHE THR SEQRES 9 A 255 TRP SER VAL ALA ASP ALA PRO GLY SER ILE LEU TYR THR SEQRES 10 A 255 VAL GLN HIS SER PRO GLN ASN ASN PRO PHE THR ALA VAL SEQRES 11 A 255 LEU SER GLN MET TYR ALA GLY TRP ALA GLY GLY MET GLN SEQRES 12 A 255 PHE ARG PHE ILE VAL ALA GLY SER GLY VAL PHE GLY GLY SEQRES 13 A 255 ARG LEU VAL ALA ALA VAL ILE PRO PRO GLY ILE GLU ILE SEQRES 14 A 255 GLY PRO GLY LEU GLU VAL ARG GLN PHE PRO HIS VAL VAL SEQRES 15 A 255 ILE ASP ALA ARG SER LEU GLU PRO VAL THR ILE THR MET SEQRES 16 A 255 PRO ASP LEU ARG PRO ASN MET TYR HIS PRO THR GLY ASP SEQRES 17 A 255 PRO GLY LEU VAL PRO THR LEU VAL LEU SER VAL TYR ASN SEQRES 18 A 255 ASN LEU ILE ASN PRO PHE GLY GLY SER THR ASN ALA ILE SEQRES 19 A 255 GLN VAL THR VAL GLU THR ARG PRO SER ASP ASP PHE GLU SEQRES 20 A 255 PHE VAL MET ILE ARG ALA PRO SER SEQRES 1 B 255 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 255 GLU ASN LEU TYR PHE GLN GLY SER LYS LEU GLU PHE MET SEQRES 3 B 255 GLU GLY LYS THR ARG THR ALA PRO GLN GLY GLU ALA ALA SEQRES 4 B 255 GLY THR ALA THR THR ALA SER VAL PRO GLY THR THR THR SEQRES 5 B 255 ASP GLY MET ASP PRO GLY VAL VAL ALA ALA THR SER VAL SEQRES 6 B 255 VAL THR ALA GLU ASN SER SER ALA SER VAL ALA THR ALA SEQRES 7 B 255 GLY ILE GLY GLY PRO PRO GLN GLN VAL ASP GLN GLN GLU SEQRES 8 B 255 THR TRP ARG THR ASN PHE TYR TYR ASN ASP VAL PHE THR SEQRES 9 B 255 TRP SER VAL ALA ASP ALA PRO GLY SER ILE LEU TYR THR SEQRES 10 B 255 VAL GLN HIS SER PRO GLN ASN ASN PRO PHE THR ALA VAL SEQRES 11 B 255 LEU SER GLN MET TYR ALA GLY TRP ALA GLY GLY MET GLN SEQRES 12 B 255 PHE ARG PHE ILE VAL ALA GLY SER GLY VAL PHE GLY GLY SEQRES 13 B 255 ARG LEU VAL ALA ALA VAL ILE PRO PRO GLY ILE GLU ILE SEQRES 14 B 255 GLY PRO GLY LEU GLU VAL ARG GLN PHE PRO HIS VAL VAL SEQRES 15 B 255 ILE ASP ALA ARG SER LEU GLU PRO VAL THR ILE THR MET SEQRES 16 B 255 PRO ASP LEU ARG PRO ASN MET TYR HIS PRO THR GLY ASP SEQRES 17 B 255 PRO GLY LEU VAL PRO THR LEU VAL LEU SER VAL TYR ASN SEQRES 18 B 255 ASN LEU ILE ASN PRO PHE GLY GLY SER THR ASN ALA ILE SEQRES 19 B 255 GLN VAL THR VAL GLU THR ARG PRO SER ASP ASP PHE GLU SEQRES 20 B 255 PHE VAL MET ILE ARG ALA PRO SER FORMUL 3 HOH *78(H2 O) HELIX 1 1 SER A 96 ASN A 99 5 4 HELIX 2 2 ASN A 100 SER A 107 1 8 HELIX 3 3 SER B 96 ASN B 99 5 4 HELIX 4 4 ASN B 100 SER B 107 1 8 SHEET 1 A 4 TYR A 73 SER A 81 0 SHEET 2 A 4 ALA A 208 PRO A 217 -1 O ILE A 209 N TRP A 80 SHEET 3 A 4 MET A 117 VAL A 123 -1 N GLN A 118 O ARG A 216 SHEET 4 A 4 VAL A 166 MET A 170 -1 O MET A 170 N MET A 117 SHEET 1 B 4 ILE A 89 GLN A 94 0 SHEET 2 B 4 THR A 189 ILE A 199 -1 O LEU A 190 N VAL A 93 SHEET 3 B 4 GLY A 130 ILE A 138 -1 N ILE A 138 O THR A 189 SHEET 4 B 4 HIS A 155 ASP A 159 -1 O ILE A 158 N LEU A 133 SHEET 1 C 3 HIS A 179 PRO A 180 0 SHEET 2 C 3 TYR A 110 ALA A 114 -1 N TRP A 113 O HIS A 179 SHEET 3 C 3 GLU A 222 ILE A 226 -1 O MET A 225 N ALA A 111 SHEET 1 D 4 TYR B 73 SER B 81 0 SHEET 2 D 4 ALA B 208 PRO B 217 -1 O VAL B 211 N PHE B 78 SHEET 3 D 4 MET B 117 VAL B 123 -1 N ARG B 120 O GLU B 214 SHEET 4 D 4 VAL B 166 MET B 170 -1 O ILE B 168 N PHE B 119 SHEET 1 E 4 ILE B 89 GLN B 94 0 SHEET 2 E 4 THR B 189 ILE B 199 -1 O LEU B 192 N TYR B 91 SHEET 3 E 4 GLY B 130 ILE B 138 -1 N ILE B 138 O THR B 189 SHEET 4 E 4 HIS B 155 ASP B 159 -1 O ILE B 158 N LEU B 133 SHEET 1 F 3 HIS B 179 PRO B 180 0 SHEET 2 F 3 TYR B 110 ALA B 114 -1 N TRP B 113 O HIS B 179 SHEET 3 F 3 GLU B 222 ILE B 226 -1 O VAL B 224 N GLY B 112 CISPEP 1 GLY A 204 SER A 205 0 -7.23 CISPEP 2 ILE B 144 GLY B 145 0 0.17 CRYST1 125.734 48.362 65.163 90.00 100.95 90.00 C 1 2 1 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 0.007953 0.000000 0.001539 0.00000 SCALE2 0.000000 0.020677 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015631 0.00000