PDB Full entry for 1R04 HEADER RHINOVIRUS COAT PROTEIN 18-FEB-88 1R04 OBSLTE 15-JAN-90 1R04 2R04 TITLE STRUCTURAL ANALYSIS OF A SERIES OF ANTIVIRAL AGENTS TITLE 2 COMPLEXED WITH HUMAN RHINOVIRUS 14 COMPND NULL SOURCE NULL KEYWDS RHINOVIRUS COAT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.BADGER,T.J.SMITH,M.G.ROSSMANN REVDAT 2 15-JAN-90 1R04 3 OBSLTE REVDAT 1 09-OCT-88 1R04 0 JRNL AUTH J.BADGER,I.MINOR,M.J.KREMER,M.A.OLIVEIRA,T.J.SMITH, JRNL AUTH 2 J.P.GRIFFITH,D.M.A.GUERIN,S.KRISHNASWAMY,M.LUO, JRNL AUTH 3 M.G.ROSSMANN,M.A.MCKINLAY,G.D.DIANA,F.J.DUTKO, JRNL AUTH 4 M.FANCHER,R.R.RUECKERT,B.A.HEINZ JRNL TITL STRUCTURAL ANALYSIS OF A SERIES OF ANTIVIRAL JRNL TITL 2 AGENTS COMPLEXED WITH HUMAN RHINOVIRUS 14 JRNL REF PROC.NATL.ACAD.SCI.USA V. 85 3304 1988 JRNL REFN ASTM PNASA6 US ISSN 0027-8424 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NULL ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : NULL REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1R04 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 1R04 THERE ARE EIGHT STUDIES OF DRUGS BOUND TO RHINOVIRUS REMARK 5 THAT 1R04 HAVE BEEN DEPOSITED WITH THE PROTEIN DATA BANK. REMARK 5 THESE 1R04 ENTRIES ARE IDENTIFIED AS 1RS1, 1RR1, 1RM2, REMARK 5 1RS3, 1R04, 1R04 1RS5, 1R06, AND 1R07. CONSIDERABLE REMARK 5 CONFORMATIONAL 1R04 DIFFERENCES EXIST BETWEEN THE NATIVE REMARK 5 RHINOVIRUS AND THE 1R04 VIRUS CONTAINING THE DRUG REMARK 5 MOLECULES. HOWEVER BECAUSE THE 1R04 STRUCTURES OF THE REMARK 5 VARIOUS RHINOVIRUS/DRUG COMPLEXES ARE NOT 1R04 DETECTABLY REMARK 5 DIFFERENT FROM EACH OTHER THE COORDINATES OF THE 1R04 VIRUS REMARK 5 ARE ONLY PRESENTED ONCE, IN ENTRY 1RS1. IN ADDITION, 1R04 REMARK 5 SOME RECORDS ARE OMITTED FROM ALL ENTRIES EXCEPT 1RS1 1R04 REMARK 5 (REMARK 1, SEQRES, FTNOTE, HELIX, SHEET). 1R04 REMARK 6 REMARK 6 1R04 THE ATOM NAMES PROVIDED BY THE DEPOSITORS CONTAINED REMARK 6 1R04 SPECIAL CHARACTERS WHICH HAVE BEEN REPLACED AS 1R04 REMARK 6 FOLLOWS IN THE ATOM NAMES ON HETATM RECORDS BELOW - 1R04 REMARK 6 SINGLE QUOTE A 1R04 ASTERISK B 1R04 NUMBER SIGN C 1R04 REMARK 7 REMARK 7 1R04 CORRECTION. THIS ENTRY IS OBSOLETE. 15-JAN-90. 1R04 REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 1/2-X,-Y,1/2+Z REMARK 290 3555 -X,1/2+Y,1/2-Z REMARK 290 4555 1/2+X,1/2-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 1/2+Z,1/2-X,-Y REMARK 290 7555 1/2-Z,-X,1/2+Y REMARK 290 8555 -Z,1/2+X,1/2-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,1/2+Z,1/2-X REMARK 290 11555 1/2+Y,1/2-Z,-X REMARK 290 12555 1/2-Y,-Z,1/2+X 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 -0.992912 -0.007511 -0.118375 208.50313 REMARK 290 SMTRY2 2 -0.007566 -0.991983 0.126356 0.89155 REMARK 290 SMTRY3 2 -0.118845 0.125941 0.984895 235.84130 REMARK 290 SMTRY1 3 -0.991983 0.126356 -0.007566 0.89155 REMARK 290 SMTRY2 3 0.125941 0.984895 -0.118845 235.84130 REMARK 290 SMTRY3 3 -0.007511 -0.118375 -0.992912 208.50313 REMARK 290 SMTRY1 4 0.984895 -0.118845 0.125941 235.84130 REMARK 290 SMTRY2 4 -0.118375 -0.992912 -0.007511 208.50313 REMARK 290 SMTRY3 4 0.126356 -0.007566 -0.991983 0.89155 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 -0.118845 0.125941 0.984895 235.84130 REMARK 290 SMTRY2 6 -0.992912 -0.007511 -0.118375 208.50313 REMARK 290 SMTRY3 6 -0.007566 -0.991983 0.126356 0.89155 REMARK 290 SMTRY1 7 -0.007511 -0.118375 -0.992912 208.50313 REMARK 290 SMTRY2 7 -0.991983 0.126356 -0.007566 0.89155 REMARK 290 SMTRY3 7 0.125941 0.984895 -0.118845 235.84130 REMARK 290 SMTRY1 8 0.126356 -0.007566 -0.991983 0.89155 REMARK 290 SMTRY2 8 0.984895 -0.118845 0.125941 235.84130 REMARK 290 SMTRY3 8 -0.118375 -0.992912 -0.007511 208.50313 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 -0.007566 -0.991983 0.126356 0.89155 REMARK 290 SMTRY2 10 -0.118845 0.125941 0.984895 235.84130 REMARK 290 SMTRY3 10 -0.992912 -0.007511 -0.118375 208.50313 REMARK 290 SMTRY1 11 0.125941 0.984895 -0.118845 235.84130 REMARK 290 SMTRY2 11 -0.007511 -0.118375 -0.992912 208.50313 REMARK 290 SMTRY3 11 -0.991983 0.126356 -0.007566 0.89155 REMARK 290 SMTRY1 12 -0.118375 -0.992912 -0.007511 208.50313 REMARK 290 SMTRY2 12 0.126356 -0.007566 -0.991983 0.89155 REMARK 290 SMTRY3 12 0.984895 -0.118845 0.125941 235.84130 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF NULLCHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 HET W71 1 25 HETNAM W71 5-(7-(4-(4,5-DIHYDRO-2-OXAZOLYL)PHENOXY)HEPTYL)-3- HETNAM 2 W71 METHYL ISOXAZOLE HETSYN W71 COMPOUND IV FORMUL 1 W71 C20 H26 N2 O3 CRYST1 445.100 445.100 445.100 90.00 90.00 90.00 P 21 3 4 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 0.002238 -0.000134 0.000142 0.00039 SCALE2 0.000142 0.002238 -0.000134 0.00039 SCALE3 -0.000134 0.000142 0.002238 0.00039 HETATM 1 O1 W71 1 36.317 6.426 126.736 1.00 1.00 O HETATM 2 N2 W71 1 35.894 7.771 126.608 1.00 1.00 N HETATM 3 C3 W71 1 36.473 8.226 125.548 1.00 1.00 C HETATM 4 C31 W71 1 36.238 9.635 125.121 1.00 1.00 C HETATM 5 C4 W71 1 37.278 7.242 124.943 1.00 1.00 C HETATM 6 C5 W71 1 37.146 6.154 125.714 1.00 1.00 C HETATM 7 C1C W71 1 37.666 4.792 125.734 1.00 1.00 C HETATM 8 C2C W71 1 38.476 4.470 124.521 1.00 1.00 C HETATM 9 C3C W71 1 38.754 3.002 124.410 1.00 1.00 C HETATM 10 C4C W71 1 39.935 2.671 123.585 1.00 1.00 C HETATM 11 C5C W71 1 40.894 1.761 124.284 1.00 1.00 C HETATM 12 C6C W71 1 40.974 0.407 123.663 1.00 1.00 C HETATM 13 C7C W71 1 42.282 -0.246 123.920 1.00 1.00 C HETATM 14 O1B W71 1 42.426 -1.257 122.947 1.00 1.00 O HETATM 15 C1B W71 1 43.611 -1.899 122.794 1.00 1.00 C HETATM 16 C2B W71 1 43.974 -2.574 121.639 1.00 1.00 C HETATM 17 C3B W71 1 45.183 -3.219 121.589 1.00 1.00 C HETATM 18 C4B W71 1 46.048 -3.194 122.676 1.00 1.00 C HETATM 19 C5B W71 1 45.687 -2.488 123.834 1.00 1.00 C HETATM 20 C6B W71 1 44.474 -1.845 123.890 1.00 1.00 C HETATM 21 C2A W71 1 47.314 -3.925 122.601 1.00 1.00 C HETATM 22 N3A W71 1 47.751 -4.637 121.437 1.00 1.00 N HETATM 23 C4A W71 1 48.984 -5.192 121.590 1.00 1.00 C HETATM 24 C5A W71 1 49.263 -4.734 123.010 1.00 1.00 C HETATM 25 O1A W71 1 48.217 -3.993 123.522 1.00 1.00 O CONECT 1 2 6 CONECT 2 1 3 CONECT 3 2 4 5 CONECT 4 3 CONECT 5 3 6 CONECT 6 1 5 7 CONECT 7 6 8 CONECT 8 7 9 CONECT 9 8 10 CONECT 10 9 11 CONECT 11 10 12 CONECT 12 11 13 CONECT 13 12 14 CONECT 14 13 15 CONECT 15 14 16 20 CONECT 16 15 17 CONECT 17 16 18 CONECT 18 17 19 21 CONECT 19 18 20 CONECT 20 15 19 CONECT 21 18 22 25 CONECT 22 21 23 CONECT 23 22 24 CONECT 24 23 25 CONECT 25 21 24 MASTER 242 0 1 0 0 0 0 6 25 0 25 0 END