HEADER COMPLEX (PARVOVIRUS COAT PROTEIN/DNA) 08-DEC-94 3DPV OBSLTE 01-APR-97 3DPV 4DPV TITLE SINGLE-STRANDED DNA-PROTEIN INTERACTIONS IN CANINE TITLE 2 PARVOVIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(P*(UNK)P*TP*AP*CP*CP*TP*CP*TP*TP*GP*C)- COMPND 3 3'); COMPND 4 CHAIN: D; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE:; COMPND 8 CHAIN: A; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2 KEYWDS COMPLEX (PARVOVIRUS COAT PROTEIN/DNA) EXPDTA X-RAY DIFFRACTION AUTHOR M.S.CHAPMAN,M.G.ROSSMANN REVDAT 1 14-FEB-95 3DPV 0 SPRSDE 14-FEB-95 3DPV 2DPV JRNL AUTH M.S.CHAPMAN,M.G.ROSSMANN JRNL TITL SINGLE-STRANDED DNA-PROTEIN INTERACTIONS IN CANINE JRNL TITL 2 PARVOVIRUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.S.CHAPMAN,M.G.ROSSMANN REMARK 1 TITL STRUCTURAL REFINEMENT OF THE DNA-CONTAINING CAPSID REMARK 1 TITL 2 OF CANINE PARVOVIRUS USING A NEW RESTRAINED REAL REMARK 1 TITL 3 SPACE METHOD REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH M.S.CHAPMAN REMARK 1 TITL REFINEMENT USING A NEW RESOLUTION-DEPENDENT REMARK 1 TITL 2 ELECTRON DENSITY FUNCTION REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 3 REMARK 1 AUTH M.S.CHAPMAN,M.G.ROSSMANN REMARK 1 TITL STRUCTURE, SEQUENCE AND FUNCTION CORRELATIONS REMARK 1 TITL 2 AMONG PARVOVIRUSES REMARK 1 REF VIROLOGY V. 194 491 1993 REMARK 1 REFN ASTM VIRLAX US ISSN 0042-6822 REMARK 1 REFERENCE 4 REMARK 1 AUTH M.S.CHAPMAN,J.TSAO,M.G.ROSSMANN REMARK 1 TITL AB INITIO PHASE DETERMINATION FOR SPHERICAL REMARK 1 TITL 2 VIRUSES: PARAMETER DETERMINATION FOR SPHERICAL REMARK 1 TITL 3 SHELL MODELS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.A V. 48 301 1992 REMARK 1 REFN ASTM ACACEQ DK ISSN 0108-7673 REMARK 1 REFERENCE 5 REMARK 1 AUTH J.TSAO,M.S.CHAPMAN,H.WU,M.AGBANDJE,W.KELLER, REMARK 1 AUTH 2 M.G.ROSSMANN REMARK 1 TITL STRUCTURE DETERMINATION OF MONOCLINIC CANINE REMARK 1 TITL 2 PARVOVIRUS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.B V. 48 75 1992 REMARK 1 REFN ASTM ASBSDK DK ISSN 0108-7681 REMARK 1 REFERENCE 6 REMARK 1 AUTH J.TSAO,M.S.CHAPMAN,M.AGBANDJE,W.KELLER,K.SMITH, REMARK 1 AUTH 2 H.WU,M.LUO,T.J.SMITH,M.G.ROSSMANN,R.W.COMPANS, REMARK 1 AUTH 3 C.R.PARRISH REMARK 1 TITL THE THREE-DIMENSIONAL STRUCTURE OF CANINE REMARK 1 TITL 2 PARVOVIRUS AND ITS FUNCTIONAL IMPLICATIONS REMARK 1 REF SCIENCE V. 251 1456 1991 REMARK 1 REFN ASTM SCIEAS US ISSN 0036-8075 REMARK 1 REFERENCE 7 REMARK 1 AUTH M.LUO,J.TSAO,M.G.ROSSMANN,S.BASAK,R.W.COMPANS REMARK 1 TITL PRELIMINARY X-RAY CRYSTALLOGRAPHIC ANALYSIS OF REMARK 1 TITL 2 CANINE PARVOVIRUS CRYSTALS REMARK 1 REF J.MOL.BIOL. V. 200 209 1988 REMARK 1 REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : RSREF 3DPV REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 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 : 557776 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 : 0.283 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 : 4320 REMARK 3 NUCLEIC ACID ATOMS : 212 REMARK 3 HETEROGEN ATOMS : 4 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) : 30.10 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) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 2.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 15.40 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 3DPV COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 3DPV ELEVEN NUCLEOTIDES OF THE GENOMIC SINGLE-STRANDED DNA REMARK 5 ARE 3DPV BOUND TO EACH OF THE 60 PROTOMERS OF THE CAPSID, REMARK 5 TOGETHER 3DPV CONSTITUTING 13 PERCENT OF THE GENOME. THE REMARK 5 ELECTRON 3DPV DENSITY IS THE AVERAGE OF UP TO 60 DIFFERENT REMARK 5 REGIONS OF THE 3DPV DNA SEQUENCE. THUS, THE ELECTRON REMARK 5 DENSITY FOR EACH BASE IS 3DPV EXPECTED TO BE BLURRED AS IT REMARK 5 IS THE AVERAGE OF MANY BASES. 3DPV HOWEVER, FOR MANY OF THE REMARK 5 NUCLEOTIDES, THE ELECTRON DENSITY 3DPV IS DISTINCTIVE FOR REMARK 5 PURINE OR PYRIMIDINE, AND IN SOME CASES 3DPV FOR INDIVIDUAL REMARK 5 BASE-TYPE. THIS SHOWS THAT THERE IS SOME 3DPV SEQUENCE REMARK 5 PREFERENCE. THERE ARE 30+ REGIONS OF THE 3DPV ENCAPSIDATED REMARK 5 GENOMIC SEQUENCE THAT SATISFY THIS PREFERENCE 3DPV (SEE * REMARK 5 JRNL* REFERENCE), BUT THE HOMOLOGY BETWEEN THEM IS 3DPV REMARK 5 WEAK. THE BASE-TYPES OF THE DNA MODEL WERE CHOSEN TO FIT REMARK 5 3DPV THE ELECTRON DENSITY AND STERIC CONSTRAINTS BEST, AND REMARK 5 IS 3DPV THEREFORE SIMILAR TO THE CONSENSUS OF THE VIRAL REMARK 5 SEQUENCES 3DPV THAT BIND. NOTE THAT THE SEQUENCE OF THE DNA REMARK 5 IN THE 3DPV GENBANK ENTRY PVCPVC IS THE NEGATIVE OF THE REMARK 5 SEQUENCE THAT 3DPV IS ENCAPSIDATED IN THE VIRION. 3DPV REMARK 6 REMARK 6 3DPV INTERPRETABLE ELECTRON DENSITY BEGINS AT THE 37TH REMARK 6 RESIDUE 3DPV OF VP2. THERE IS DIFFUSE DENSITY, SUGGESTING REMARK 6 THAT ONE IN 3DPV FIVE OF THE N-TERMINI IS ON THE OUTSIDE OF REMARK 6 THE CAPSID, AND 3DPV THAT THE POLYPEPTIDE RUNS DOWN THE REMARK 6 FIVE-FOLD AXIS TO JOIN 3DPV RESIDUE 37 ON THE INSIDE REMARK 6 SURFACE (SEE ACTA CRYSTALLOGR. 3DPV 1992 REFERENCE ABOVE). REMARK 6 3DPV REMARK 7 REMARK 7 3DPV ELECTRON DENSITY FOR RESIDUES 93 - 94, 155 - 162, 221 REMARK 7 - 228 3DPV AND 358 - 373 IS WEAK. RESIDUES 156 - 159 ARE REMARK 7 NOT 3DPV PRESENTED ON *ATOM* RECORDS BELOW. THERE IS NO REMARK 7 ELECTRON 3DPV DENSITY FOR THE BASE OF NUCLEOTIDE D 1, WHICH REMARK 7 HAS NOT BEEN 3DPV MODELLED. THIS NUCLEOTIDE HAS BEEN REMARK 7 ASSIGNED THE RESIDUE 3DPV TYPE "UNK". 3DPV REMARK 8 REMARK 8 3DPV THE STRUCTURE OF CANINE PARVOVIRUS FOLLOWS THE REMARK 8 CANONICAL 3DPV PICORNA-VIRUS LIKE "JELLY ROLL" BARREL. THE REMARK 8 SHEET 3DPV IDENTIFIED AS "BDG" IS THAT REFERRED TO AS " REMARK 8 BIDG" IN THE 3DPV LITERATURE WITH STRANDS 1 TO 5 REMARK 8 CORRESPONDING TO STRANDS A, 3DPV B, I, D, AND G. THE SHEET REMARK 8 IDENTIFIED AS "CHF" IS THE 3DPV SO-CALLED CHEF SHEET WITH REMARK 8 STRANDS 1 TO 4 CORRESPONDING TO 3DPV STRANDS C, H, E, AND REMARK 8 F. THESE TWO SHEETS ARE LOOSELY 3DPV CONNECTED TOGETHER BY REMARK 8 HYDROGEN BONDS BETWEEN STRAND 4 OF 3DPV "CHF" AND RESIDUE REMARK 8 45 IMMEDIATELY PRECEDING STRAND 1 OF 3DPV "BDG" OF A FIVE- REMARK 8 FOLD RELATED PROTOMER THAT IS 3DPV GENERATED USING THE REMARK 8 SYMMETRY OPERATORS LISTED BELOW. CPV 3DPV CONTAINS SEVERAL REMARK 8 LONG LOOPS BETWEEN STRANDS OF "BDG" AND 3DPV "CHF" WITH REMARK 8 LITTLE ORGANIZED SECONDARY STRUCTURE. THERE ARE 3DPV REMARK 8 STRANDS WITHIN THE LOOPS THAT ARE LOOSELY HYDROGEN-BONDED REMARK 8 3DPV TOGETHER. WITH FEWER HYDROGEN BONDS AND LESS REGULAR REMARK 8 3DPV SECONDARY STRUCTURE THEY MUST BE REGARDED MORE REMARK 8 TENTATIVELY. 3DPV THIS IS WHY THE SHEET "LP2" HAS BEEN REMARK 8 IDENTIFIED SEPARATELY, 3DPV ALTHOUGH IT COULD BE CONSIDERED REMARK 8 TO BE AN EXTENSION OF SHEET 3DPV "CHF", EXTENDING FROM REMARK 8 STRAND 1. STRAND 1 OF "LP2" HAS A 3DPV BULGE AND A CHANGE REMARK 8 OF DIRECTION AT RESIDUE 107, AFTER WHICH 3DPV IT BECOMES REMARK 8 STRAND 1 OF "CHF". THE MIDDLE STRAND OF "LP2" 3DPV CONTAINS REMARK 8 TWO SEGMENTS THAT RUN IN THE SAME GENERAL 3DPV DIRECTION, REMARK 8 BUT ARE SEPARATED BY NON-BETA STRUCTURE. THE 3DPV FIRST REMARK 8 SEGMENT (206 - 211) HYDROGEN BONDS ON ONE SIDE ONLY, 3DPV REMARK 8 TO RESIDUES 103 - 111, AND THE SECOND SEGMENT (215 - 218) REMARK 8 3DPV HYDROGEN BONDS ON THE OPPOSITE SIDE TO RESIDUES 230 - REMARK 8 235. 3DPV REMARK 9 REMARK 9 3DPV IN ORDER TO REPRESENT THE BIFURCATED SHEET STRUCTURE REMARK 9 IN THE 3DPV *SHEET* RECORDS BELOW, TWO SHEETS, *BDG* AND * REMARK 9 CDG* ARE 3DPV DEFINED. STRANDS 1 - 4 OF THESE SHEETS ARE REMARK 9 IDENTICAL. 3DPV REMARK 10 REMARK 10 3DPV THE FOLLOWING 60 ROTATION MATRICES ARE USED TO REMARK 10 GENERATE 3DPV COORDINATES FOR A COMPLETE CAPSID WHEN REMARK 10 APPLIED TO THE 3DPV COORDINATES PRESENTED ON THE ATOM REMARK 10 RECORDS. FOLLOWING 3DPV THESE MATRICES ARE GIVEN THE REMARK 10 MATRICES REQUIRED TO PLACE 3DPV THE CAPSID INTO THE UNIT REMARK 10 CELL AND TO CONVERT TO FRACTIONAL 3DPV COORDINATES. 3DPV REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 1.0000 0.0000 0.0000 REMARK 10 0.0 3DPV 0.0000 1.0000 0.0000 0.0 3DPV 0.0000 0.0000 1.0000 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.5000 -0.8090 REMARK 10 0.3090 0.0 3DPV 0.8090 0.3090 -0.5000 0.0 3DPV 0.3090 REMARK 10 0.5000 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV - REMARK 10 0.3090 -0.5000 0.8090 0.0 3DPV 0.5000 -0.8090 -0.3090 0.0 REMARK 10 3DPV 0.8090 0.3090 0.5000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.3090 0.5000 0.8090 0.0 3DPV -0.5000 - REMARK 10 0.8090 0.3090 0.0 3DPV 0.8090 -0.3090 0.5000 0.0 3DPV REMARK 10 SYMMETRY_OPERATOR ROTATION 3DPV 0.5000 0.8090 0.3090 0.0 REMARK 10 3DPV -0.8090 0.3090 0.5000 0.0 3DPV 0.3090 -0.5000 0.8090 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 -0.5000 REMARK 10 0.8090 0.0 3DPV -0.5000 -0.8090 -0.3090 0.0 3DPV 0.8090 - REMARK 10 0.3090 -0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV REMARK 10 0.0000 0.0000 1.0000 0.0 3DPV -1.0000 0.0000 0.0000 0.0 REMARK 10 3DPV 0.0000 -1.0000 0.0000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 0.3090 0.5000 0.8090 0.0 3DPV -0.5000 0.8090 REMARK 10 -0.3090 0.0 3DPV -0.8090 -0.3090 0.5000 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV 0.8090 0.3090 0.5000 0.0 3DPV 0.3090 REMARK 10 0.5000 -0.8090 0.0 3DPV -0.5000 0.8090 0.3090 0.0 3DPV REMARK 10 SYMMETRY_OPERATOR ROTATION 3DPV 0.8090 -0.3090 0.5000 0.0 REMARK 10 3DPV 0.3090 -0.5000 -0.8090 0.0 3DPV 0.5000 0.8090 -0.3090 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.5000 -0.8090 REMARK 10 0.3090 0.0 3DPV -0.8090 0.3090 -0.5000 0.0 3DPV 0.3090 - REMARK 10 0.5000 -0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV - REMARK 10 0.8090 0.3090 0.5000 0.0 3DPV -0.3090 0.5000 -0.8090 0.0 REMARK 10 3DPV -0.5000 -0.8090 -0.3090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 0.0000 1.0000 0.0000 0.0 3DPV 0.0000 0.0000 - REMARK 10 1.0000 0.0 3DPV -1.0000 0.0000 0.0000 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV 0.8090 0.3090 -0.5000 0.0 3DPV - REMARK 10 0.3090 -0.5000 -0.8090 0.0 3DPV -0.5000 0.8090 -0.3090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.5000 -0.8090 -0.3090 REMARK 10 0.0 3DPV -0.8090 -0.3090 -0.5000 0.0 3DPV 0.3090 0.5000 - REMARK 10 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.5000 REMARK 10 0.8090 -0.3090 0.0 3DPV -0.8090 0.3090 -0.5000 0.0 3DPV - REMARK 10 0.3090 0.5000 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION REMARK 10 3DPV 0.8090 -0.3090 -0.5000 0.0 3DPV -0.3090 0.5000 -0.8090 REMARK 10 0.0 3DPV 0.5000 0.8090 0.3090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 0.0000 -1.0000 0.0000 0.0 3DPV 0.0000 0.0000 REMARK 10 -1.0000 0.0 3DPV 1.0000 0.0000 0.0000 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV -0.8090 -0.3090 0.5000 0.0 3DPV - REMARK 10 0.3090 -0.5000 -0.8090 0.0 3DPV 0.5000 -0.8090 0.3090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.5000 0.8090 0.3090 REMARK 10 0.0 3DPV -0.8090 -0.3090 -0.5000 0.0 3DPV -0.3090 -0.5000 REMARK 10 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.0000 REMARK 10 0.0000 1.0000 0.0 3DPV 1.0000 0.0000 0.0000 0.0 3DPV 0.0000 REMARK 10 1.0000 0.0000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV REMARK 10 0.3090 0.5000 0.8090 0.0 3DPV 0.5000 -0.8090 0.3090 0.0 REMARK 10 3DPV 0.8090 0.3090 -0.5000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 0.8090 0.3090 0.5000 0.0 3DPV -0.3090 -0.5000 REMARK 10 0.8090 0.0 3DPV 0.5000 -0.8090 -0.3090 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV 0.8090 -0.3090 0.5000 0.0 3DPV - REMARK 10 0.3090 0.5000 0.8090 0.0 3DPV -0.5000 -0.8090 0.3090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 -0.5000 0.8090 REMARK 10 0.0 3DPV 0.5000 0.8090 0.3090 0.0 3DPV -0.8090 0.3090 REMARK 10 0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.8090 - REMARK 10 0.3090 -0.5000 0.0 3DPV 0.3090 -0.5000 0.8090 0.0 3DPV - REMARK 10 0.5000 -0.8090 -0.3090 0.0 3DPV SYMMETRY_OPERATOR ROTATION REMARK 10 3DPV 0.0000 -1.0000 0.0000 0.0 3DPV 0.0000 0.0000 1.0000 REMARK 10 0.0 3DPV -1.0000 0.0000 0.0000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.8090 -0.3090 0.5000 0.0 3DPV 0.3090 0.5000 REMARK 10 0.8090 0.0 3DPV -0.5000 0.8090 -0.3090 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV -0.5000 0.8090 0.3090 0.0 3DPV REMARK 10 0.8090 0.3090 0.5000 0.0 3DPV 0.3090 0.5000 -0.8090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.5000 0.8090 -0.3090 REMARK 10 0.0 3DPV 0.8090 -0.3090 0.5000 0.0 3DPV 0.3090 -0.5000 - REMARK 10 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 - REMARK 10 0.5000 -0.8090 0.0 3DPV -0.5000 -0.8090 0.3090 0.0 3DPV - REMARK 10 0.8090 0.3090 -0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION REMARK 10 3DPV -0.5000 -0.8090 -0.3090 0.0 3DPV -0.8090 0.3090 0.5000 REMARK 10 0.0 3DPV -0.3090 0.5000 -0.8090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -1.0000 0.0000 0.0000 0.0 3DPV 0.0000 1.0000 REMARK 10 0.0000 0.0 3DPV 0.0000 0.0000 -1.0000 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV -0.5000 0.8090 -0.3090 0.0 3DPV REMARK 10 0.8090 0.3090 -0.5000 0.0 3DPV -0.3090 -0.5000 -0.8090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 0.5000 -0.8090 REMARK 10 0.0 3DPV 0.5000 -0.8090 -0.3090 0.0 3DPV -0.8090 -0.3090 - REMARK 10 0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.3090 REMARK 10 0.5000 0.8090 0.0 3DPV 0.5000 0.8090 -0.3090 0.0 3DPV - REMARK 10 0.8090 0.3090 -0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION REMARK 10 3DPV 0.5000 0.8090 0.3090 0.0 3DPV 0.8090 -0.3090 -0.5000 REMARK 10 0.0 3DPV -0.3090 0.5000 -0.8090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 1.0000 0.0000 0.0000 0.0 3DPV 0.0000 -1.0000 REMARK 10 0.0000 0.0 3DPV 0.0000 0.0000 -1.0000 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV 0.5000 -0.8090 0.3090 0.0 3DPV - REMARK 10 0.8090 -0.3090 0.5000 0.0 3DPV -0.3090 -0.5000 -0.8090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.3090 -0.5000 0.8090 REMARK 10 0.0 3DPV -0.5000 0.8090 0.3090 0.0 3DPV -0.8090 -0.3090 - REMARK 10 0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.0000 REMARK 10 1.0000 0.0000 0.0 3DPV 0.0000 0.0000 1.0000 0.0 3DPV 1.0000 REMARK 10 0.0000 0.0000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV REMARK 10 0.8090 0.3090 -0.5000 0.0 3DPV 0.3090 0.5000 0.8090 0.0 REMARK 10 3DPV 0.5000 -0.8090 0.3090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV 0.5000 -0.8090 -0.3090 0.0 3DPV 0.8090 0.3090 REMARK 10 0.5000 0.0 3DPV -0.3090 -0.5000 0.8090 0.0 3DPV SYMMETRY_ REMARK 10 OPERATOR ROTATION 3DPV -0.5000 -0.8090 0.3090 0.0 3DPV REMARK 10 0.8090 -0.3090 0.5000 0.0 3DPV -0.3090 0.5000 0.8090 0.0 REMARK 10 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.8090 0.3090 0.5000 REMARK 10 0.0 3DPV 0.3090 -0.5000 0.8090 0.0 3DPV 0.5000 0.8090 REMARK 10 0.3090 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.5000 - REMARK 10 0.8090 -0.3090 0.0 3DPV 0.8090 -0.3090 -0.5000 0.0 3DPV REMARK 10 0.3090 -0.5000 0.8090 0.0 3DPV SYMMETRY_OPERATOR ROTATION REMARK 10 3DPV -1.0000 0.0000 0.0000 0.0 3DPV 0.0000 -1.0000 0.0000 REMARK 10 0.0 3DPV 0.0000 0.0000 1.0000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.5000 0.8090 -0.3090 0.0 3DPV -0.8090 - REMARK 10 0.3090 0.5000 0.0 3DPV 0.3090 0.5000 0.8090 0.0 3DPV REMARK 10 SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 0.5000 -0.8090 0.0 REMARK 10 3DPV -0.5000 0.8090 0.3090 0.0 3DPV 0.8090 0.3090 0.5000 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.3090 -0.5000 - REMARK 10 0.8090 0.0 3DPV 0.5000 0.8090 -0.3090 0.0 3DPV 0.8090 - REMARK 10 0.3090 0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV - REMARK 10 0.8090 0.3090 -0.5000 0.0 3DPV 0.3090 -0.5000 -0.8090 0.0 REMARK 10 3DPV -0.5000 -0.8090 0.3090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.3090 0.5000 -0.8090 0.0 3DPV -0.5000 - REMARK 10 0.8090 -0.3090 0.0 3DPV -0.8090 0.3090 0.5000 0.0 3DPV REMARK 10 SYMMETRY_OPERATOR ROTATION 3DPV 0.0000 0.0000 -1.0000 0.0 REMARK 10 3DPV -1.0000 0.0000 0.0000 0.0 3DPV 0.0000 1.0000 0.0000 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV -0.3090 -0.5000 - REMARK 10 0.8090 0.0 3DPV -0.5000 0.8090 -0.3090 0.0 3DPV 0.8090 REMARK 10 0.3090 -0.5000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV - REMARK 10 0.8090 -0.3090 -0.5000 0.0 3DPV 0.3090 0.5000 -0.8090 0.0 REMARK 10 3DPV 0.5000 -0.8090 -0.3090 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.8090 0.3090 -0.5000 0.0 3DPV -0.3090 REMARK 10 0.5000 0.8090 0.0 3DPV 0.5000 0.8090 -0.3090 0.0 3DPV REMARK 10 SYMMETRY_OPERATOR ROTATION 3DPV -0.3090 0.5000 -0.8090 0.0 REMARK 10 3DPV 0.5000 0.8090 0.3090 0.0 3DPV 0.8090 -0.3090 -0.5000 REMARK 10 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV 0.0000 0.0000 - REMARK 10 1.0000 0.0 3DPV 1.0000 0.0000 0.0000 0.0 3DPV 0.0000 - REMARK 10 1.0000 0.0000 0.0 3DPV SYMMETRY_OPERATOR ROTATION 3DPV - REMARK 10 0.3090 -0.5000 -0.8090 0.0 3DPV 0.5000 -0.8090 0.3090 0.0 REMARK 10 3DPV -0.8090 -0.3090 0.5000 0.0 3DPV SYMMETRY_OPERATOR REMARK 10 ROTATION 3DPV -0.8090 -0.3090 -0.5000 0.0 3DPV -0.3090 - REMARK 10 0.5000 0.8090 0.0 3DPV -0.5000 0.8090 0.3090 0.0 3DPV 3DPV REMARK 10 THE COORDINATES IN THIS ENTRY CAN BE CONVERTED TO 3DPV REMARK 10 CRYSTALLOGRAPHIC FRACTIONAL COORDINATES BY APPLYING THE REMARK 10 3DPV TRANSFORMATION PRESENTED ON *SCALE* RECORDS BELOW. THE REMARK 10 3DPV *SCALE* OPERATOR TRANSFORMS THE COORDINATES FROM THE REMARK 10 3DPV RIGHT-HANDED ORTHOGONAL PQR-SYSTEM USED FOR THE REMARK 10 COORDINATES 3DPV (SEE REMARK 11) TO AN ORTHOGONAL REMARK 10 FRACTIONAL UVW-SYSTEM. 3DPV THIS SYSTEM IS RIGHT-HANDED, REMARK 10 BUT WITH U, V, W POINTING IN 3DPV THE OPPOSITE DIRECTIONS REMARK 10 FROM THE CONVENTION OF BLOW AND 3DPV ROSSMANN (1962). THUS, REMARK 10 AS DETAILED IN REFERENCE 1, ALL OF 3DPV THE COORDINATE REMARK 10 SYSTEMS ARE RIGHT-HANDED UNLIKE PREVIOUS 3DPV DEPOSITIONS REMARK 10 (2DPV) AND UNLIKE REFERENCE 5. (THIS CONFUSION 3DPV REMARK 10 ORIGINATED WITH AN ARBITRARY CHOICE OF HAND DURING PHASE REMARK 10 3DPV DETERMINATION THAT PROVED TO BE LEFT-HANDED. REMARK 10 CONSISTENT 3DPV RIGHT-HANDED COORDINATES AND STRUCTURE REMARK 10 FACTORS HAVE BEEN 3DPV OBTAINED BY INVERTING THE SIGN OF REMARK 10 THE PHASES AND 3DPV APPROPRIATE TRANSFORMATION OF THE REMARK 10 MATRICES OF REFERENCE 5. 3DPV THE AUTHORS CHOSE THE " REMARK 10 NEGATIVE" UVW CONVENTION TO AVOID 3DPV RE-INDEXING AND REMARK 10 RESORTING PUBLISHED STRUCTURE FACTORS.) 3DPV A COMPLETE SET REMARK 10 OF FRACTIONAL COORDINATES OF THE ENTIRE 3DPV CAPSID IS BEST REMARK 10 GENERATED THROUGH APPLICATION OF EACH OF THE 3DPV 60 REMARK 10 OPERATORS GIVEN ABOVE FOLLOWED BY TRANSFORMATION BY THE REMARK 10 3DPV *SCALE* OPERATOR. *SCALE* IS THE CONCATENATION: 3DPV REMARK 10 3DPV [ALPHA][RHO] + (SIGMA) OF REFERENCE 1, I.E.: 3DPV U-> REMARK 10 = [*SCALE*][*MTRIX*]P-> 3DPV = [ALPHA][RHO][*MTRIX*]P-> + REMARK 10 SIGMA->, WHERE: 3DPV 3DPV [RHO] = 0.5793806 -0.0105097 - REMARK 10 0.8149953, SIGMA = -0.25392 3DPV 0.0300839 -0.9989412 REMARK 10 0.0342912 0.0 3DPV 0.8144993 0.0444241 0.5785251 -0.24723 REMARK 10 3DPV 3DPV [ALPHA] = -0.0037996 0.0000000 0.0000000 3DPV REMARK 10 0.0000000 -0.0028652 0.0000000 3DPV -0.0000534 0.0000000 - REMARK 10 0.0037408 3DPV REMARK 11 REMARK 11 3DPV THE ORTHOGONAL SYSTEM CHOSEN FOR THIS ENTRY 3DPV IS REMARK 11 DEFINED BY THREE ORTHOGONAL TWO-FOLD AXES FROM THE 3DPV REMARK 11 ICOSAHEDRAL SYMMETRY ELEMENTS AS ORIENTED WITHIN THE CANINE REMARK 11 3DPV PARVOVIRUS MONOCLINIC UNIT CELL. THIS FACILITATES 3DPV REMARK 11 EXPANSION TO THE FULL PARTICLE USING SYMMETRY OPERATIONS OF REMARK 11 3DPV A "STANDARD" ICOSAHEDRON AND IS CONSISTENT WITH THE REMARK 11 CANINE 3DPV PARVOVIRUS LITERATURE. NOTE THAT THIS CHOICE OF REMARK 11 ORTHOGONAL 3DPV FRAME IS DIFFERENT FROM THE DEFAULT FRAME. REMARK 11 3DPV REMARK 12 REMARK 12 3DPV RELATED DATA-BASE ENTRIES: 3DPV 2CAS - EMPTY CANINE REMARK 12 PARVOVIRUS (NO DNA) 3DPV 1FPV - FELINE PANLEUKOPENIA VIRUS REMARK 12 3DPV REMARK 13 REMARK 13 3DPV ORIGINAL DEPOSITION REVISED PRIOR TO RELEASE 3DPV REMARK 13 TRACKING NUMBER: T5692, DATE REVISED: 31-JAN-95 3DPV REMARK 36 REMARK 36 3DPV TOPIC: STEREOCHEMISTRY 3DPV 3DPV SUBTOPIC: BOND REMARK 36 LENGTHS (36.1) 3DPV 3DPV STANDARD TEXT: 3DPV 3DPV THE REMARK 36 STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES 3DPV REMARK 36 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE 3DPV REMARK 36 THAN 4*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN 3DPV REMARK 36 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). 3DPV REMARK 36 3DPV STANDARD TABLE: 3DPV FORMAT: (10X,I3,1X,A3,1X,A1,I4, REMARK 36 A1,A4,3X,A4,16X,F5.1) 3DPV 3DPV EXPECTED VALUES: ENGH AND REMARK 36 HUBER, 1991 3DPV 3DPV M RES CSSEQI ATM1 ATM2 DEVIATION_IN_ REMARK 36 ANGSTROMS 3DPV 3DPV 0 GLU A 75 CD - OE2 0.127 3DPV 0 MET A REMARK 36 190 SD - CE 0.113 3DPV 0 ASP A 237 CG - OD2 0.109 3DPV 0 REMARK 36 GLU A 509 CD - OE2 0.100 3DPV 0 C D 11 N1 - C1* 0.144 3DPV REMARK 36 3DPV TOPIC: STEREOCHEMISTRY 3DPV 3DPV SUBTOPIC: COVALENT REMARK 36 BOND ANGLES (36.2) 3DPV 3DPV STANDARD TEXT: 3DPV 3DPV THE REMARK 36 STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES 3DPV REMARK 36 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE 3DPV REMARK 36 THAN 4*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN 3DPV REMARK 36 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). 3DPV REMARK 36 3DPV STANDARD TABLE: 3DPV FORMAT: (10X,I3,1X,A3,1X,A1,I4, REMARK 36 A1,3(2X,A4,17X,F5.1) 3DPV 3DPV EXPECTED VALUES: ENGH AND REMARK 36 HUBER, 1991 3DPV 3DPV M RES CSSEQI ATM1 ATM2 ATM3 3DPV 3DPV REMARK 36 0 MET A 133 CA - CB - CG ANGL. DEV. = 16.3 DEGREES 3DPV 0 REMARK 36 MET A 133 CB - CG - SD ANGL. DEV. = 12.2 DEGREES 3DPV 0 PRO REMARK 36 A 160 O-1 - C-1 - N ANGL. DEV. = 74.9 DEGREES 3DPV 0 PRO A REMARK 36 160 C-1 - N - CA ANGL. DEV. = 24.9 DEGREES 3DPV 0 ASN A 321 REMARK 36 C - CA - CB ANGL. DEV. = 12.7 DEGREES 3DPV 0 ASN A 446 C-1 REMARK 36 - N - CA ANGL. DEV. = 13.2 DEGREES 3DPV 3DPV TOPIC: REMARK 36 STEREOCHEMISTRY 3DPV 3DPV SUBTOPIC: TORSION ANGLES (36.4) REMARK 36 3DPV 3DPV STANDARD TEXT: 3DPV 3DPV TORSION ANGLES OUTSIDE REMARK 36 THE EXPECTED RAMACHANDRAN REGIONS: 3DPV (M=MODEL NUMBER; REMARK 36 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; 3DPV SSEQ=SEQUENCE REMARK 36 NUMBER; I=INSERTION CODE). 3DPV 3DPV STANDARD TABLE: 3DPV REMARK 36 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) 3DPV 3DPV REMARK 36 M RES CSSEQI PSI PHI 3DPV 3DPV 0 ASN A 93 91.85 98.55 3DPV REMARK 36 0 HIS A 102 177.22 165.51 3DPV 0 ALA A 334 -166.02 -148.38 REMARK 36 3DPV 0 ARG A 361 -146.87 -88.50 3DPV 0 THR A 366 -124.23 - REMARK 36 89.38 3DPV 0 GLU A 368 66.90 -14.06 3DPV 0 ALA A 372 - REMARK 36 128.68 -147.21 3DPV 0 ASN A 492 -89.40 -135.05 3DPV 0 LYS A REMARK 36 501 178.92 147.10 3DPV REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*. 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 : 565088 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 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 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 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 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,1/2+Y,-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 -0.998187 -0.060321 0.002066 -5.26916 REMARK 290 SMTRY2 2 -0.059973 0.995836 -0.068341 174.33928 REMARK 290 SMTRY3 2 0.002063 -0.068669 -0.997649 -5.99838 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 2 CHAIN(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 REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 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 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 GLY A 4 REMARK 465 ALA A 5 REMARK 465 VAL A 6 REMARK 465 GLN A 7 REMARK 465 PRO A 8 REMARK 465 ASP A 9 REMARK 465 GLY A 10 REMARK 465 GLY A 11 REMARK 465 GLN A 12 REMARK 465 PRO A 13 REMARK 465 ALA A 14 REMARK 465 VAL A 15 REMARK 465 ARG A 16 REMARK 465 ASN A 17 REMARK 465 GLU A 18 REMARK 465 ARG A 19 REMARK 465 ALA A 20 REMARK 465 THR A 21 REMARK 465 GLY A 22 REMARK 465 SER A 23 REMARK 465 GLY A 24 REMARK 465 ASN A 25 REMARK 465 GLY A 26 REMARK 465 SER A 27 REMARK 465 GLY A 28 REMARK 465 GLY A 29 REMARK 465 GLY A 30 REMARK 465 GLY A 31 REMARK 465 GLY A 32 REMARK 465 GLY A 33 REMARK 465 GLY A 34 REMARK 465 SER A 35 REMARK 465 GLY A 36 REMARK 465 SER A 156 REMARK 465 ALA A 157 REMARK 465 THR A 158 REMARK 465 GLN A 159 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI REMARK 500 OD2 ASP A 240 MG MG 3 1.55 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 251 C - N - CD ANGL. DEV. =-22.9 DEGREES REMARK 999 REMARK 999 3DPV CROSS REFERENCE TO SEQUENCE DATA BASE: 3DPV CAPSID REMARK 999 PROTEIN OF THIS ENTRY: 3DPV PIR:VCPVCD (VP2 STARTS AT REMARK 999 RESIDUE 154 OF VP1) 3DPV GENOMIC SEQUENCE: 3DPV GENBANK: REMARK 999 PVCPVC (ENCAPSIDATED STRAND IS NEGATIVE OF DATA 3DPV BASE REMARK 999 SEQUENCE). 3DPV 3DPV CROSS REFERENCE TO SEQUENCE DATABASE REMARK 999 3DPV SWISS-PROT ENTRY NAME PDB ENTRY CHAIN NAME 3DPV COAT_ REMARK 999 PAVCD A 3DPV 3DPV THE FOLLOWING RESIDUES ARE MISSING FROM REMARK 999 THE N-TERMINUS OF C 3DPV SEQUENCE NUMBER IS THAT FROM SWISS REMARK 999 -PROT ENTRY 3DPV MET 154 3DPV SER 155 3DPV ASP 156 3DPV GLY REMARK 999 157 3DPV ALA 158 3DPV VAL 159 3DPV GLN 160 3DPV PRO 161 REMARK 999 3DPV ASP 162 3DPV GLY 163 3DPV GLY 164 3DPV GLN 165 3DPV REMARK 999 PRO 166 3DPV ALA 167 3DPV VAL 168 3DPV ARG 169 3DPV ASN 170 REMARK 999 3DPV GLU 171 3DPV ARG 172 3DPV ALA 173 3DPV THR 174 3DPV REMARK 999 GLY 175 3DPV SER 176 3DPV GLY 177 3DPV ASN 178 3DPV GLY 179 REMARK 999 3DPV SER 180 3DPV GLY 181 3DPV GLY 182 3DPV GLY 183 3DPV REMARK 999 GLY 184 3DPV GLY 185 3DPV GLY 186 3DPV GLY 187 3DPV SER 188 REMARK 999 3DPV GLY 189 3DPV THIS CORRESPONDS TO RESIDUES 1 - 36 REMARK 999 FOLLOWING THE 3DPV RESIDUE NUMBERING USED IN THIS ENTRY. REMARK 999 3DPV 3DPV RESIDUES OF CHAIN A MISSING FROM THE ATOM LIST REMARK 999 3DPV SEQUENCE NUMBER IS THAT FROM SWISS-PROT ENTRY 3DPV SER REMARK 999 309 3DPV ALA 310 3DPV THR 311 3DPV GLN 312 3DPV THIS REMARK 999 CORRESPONDS TO RESIDUES 156 - 159 FOLLOWING THE 3DPV REMARK 999 RESIDUE NUMBERING USED IN THIS ENTRY. 3DPV SEQRES 1 D 11 UNK T A C C T C T T G C SEQRES 1 A 584 MET SER ASP GLY ALA VAL GLN PRO ASP GLY GLY GLN PRO SEQRES 2 A 584 ALA VAL ARG ASN GLU ARG ALA THR GLY SER GLY ASN GLY SEQRES 3 A 584 SER GLY GLY GLY GLY GLY GLY GLY SER GLY GLY VAL GLY SEQRES 4 A 584 ILE SER THR GLY THR PHE ASN ASN GLN THR GLU PHE LYS SEQRES 5 A 584 PHE LEU GLU ASN GLY TRP VAL GLU ILE THR ALA ASN SER SEQRES 6 A 584 SER ARG LEU VAL HIS LEU ASN MET PRO GLU SER GLU ASN SEQRES 7 A 584 TYR ARG ARG VAL VAL VAL ASN ASN MET ASP LYS THR ALA SEQRES 8 A 584 VAL ASN GLY ASN MET ALA LEU ASP ASP ILE HIS ALA GLN SEQRES 9 A 584 ILE VAL THR PRO TRP SER LEU VAL ASP ALA ASN ALA TRP SEQRES 10 A 584 GLY VAL TRP PHE ASN PRO GLY ASP TRP GLN LEU ILE VAL SEQRES 11 A 584 ASN THR MET SER GLU LEU HIS LEU VAL SER PHE GLU GLN SEQRES 12 A 584 GLU ILE PHE ASN VAL VAL LEU LYS THR VAL SER GLU SER SEQRES 13 A 584 ALA THR GLN PRO PRO THR LYS VAL TYR ASN ASN ASP LEU SEQRES 14 A 584 THR ALA SER LEU MET VAL ALA LEU ASP SER ASN ASN THR SEQRES 15 A 584 MET PRO PHE THR PRO ALA ALA MET ARG SER GLU THR LEU SEQRES 16 A 584 GLY PHE TYR PRO TRP LYS PRO THR ILE PRO THR PRO TRP SEQRES 17 A 584 ARG TYR TYR PHE GLN TRP ASP ARG THR LEU ILE PRO SER SEQRES 18 A 584 HIS THR GLY THR SER GLY THR PRO THR ASN ILE TYR HIS SEQRES 19 A 584 GLY THR ASP PRO ASP ASP VAL GLN PHE TYR THR ILE GLU SEQRES 20 A 584 ASN SER VAL PRO VAL HIS LEU LEU ARG THR GLY ASP GLU SEQRES 21 A 584 PHE ALA THR GLY THR PHE PHE PHE ASP CYS LYS PRO CYS SEQRES 22 A 584 ARG LEU THR HIS THR TRP GLN THR ASN ARG ALA LEU GLY SEQRES 23 A 584 LEU PRO PRO PHE LEU ASN SER LEU PRO GLN SER GLU GLY SEQRES 24 A 584 ALA THR ASN PHE GLY ASP ILE GLY VAL GLN GLN ASP LYS SEQRES 25 A 584 ARG ARG GLY VAL THR GLN MET GLY ASN THR ASN TYR ILE SEQRES 26 A 584 THR GLU ALA THR ILE MET ARG PRO ALA GLU VAL GLY TYR SEQRES 27 A 584 SER ALA PRO TYR TYR SER PHE GLU ALA SER THR GLN GLY SEQRES 28 A 584 PRO PHE LYS THR PRO ILE ALA ALA GLY ARG GLY GLY ALA SEQRES 29 A 584 GLN THR ASP GLU ASN GLN ALA ALA ASP GLY ASN PRO ARG SEQRES 30 A 584 TYR ALA PHE GLY ARG GLN HIS GLY GLN LYS THR THR THR SEQRES 31 A 584 THR GLY GLU THR PRO GLU ARG PHE THR TYR ILE ALA HIS SEQRES 32 A 584 GLN ASP THR GLY ARG TYR PRO GLU GLY ASP TRP ILE GLN SEQRES 33 A 584 ASN ILE ASN PHE ASN LEU PRO VAL THR ASN ASP ASN VAL SEQRES 34 A 584 LEU LEU PRO THR ASP PRO ILE GLY GLY LYS THR GLY ILE SEQRES 35 A 584 ASN TYR THR ASN ILE PHE ASN THR TYR GLY PRO LEU THR SEQRES 36 A 584 ALA LEU ASN ASN VAL PRO PRO VAL TYR PRO ASN GLY GLN SEQRES 37 A 584 ILE TRP ASP LYS GLU PHE ASP THR ASP LEU LYS PRO ARG SEQRES 38 A 584 LEU HIS VAL ASN ALA PRO PHE VAL CYS GLN ASN ASN CYS SEQRES 39 A 584 PRO GLY GLN LEU PHE VAL LYS VAL ALA PRO ASN LEU THR SEQRES 40 A 584 ASN GLU TYR ASP PRO ASP ALA SER ALA ASN MET SER ARG SEQRES 41 A 584 ILE VAL THR TYR SER ASP PHE TRP TRP LYS GLY LYS LEU SEQRES 42 A 584 VAL PHE LYS ALA LYS LEU ARG ALA SER HIS THR TRP ASN SEQRES 43 A 584 PRO ILE GLN GLN MET SER ILE ASN VAL ASP ASN GLN PHE SEQRES 44 A 584 ASN TYR VAL PRO SER ASN ILE GLY GLY MET LYS ILE VAL SEQRES 45 A 584 TYR GLU LYS SER GLN LEU ALA PRO ARG LYS LEU TYR FTNOTE 1 TYR A 342 - TYR A 343 OMEGA = 354.15 PEPTIDE BOND DEVIATES FTNOTE 1 SIGNIFICANTLY FROM TRANS CONFORMATION THE DENSITY CLEARLY FTNOTE 1 SHOWS THAT THE PEPTIDE BOND BETWEEN TYR A 342 - TYR A 343 FTNOTE 1 IS CIS. FTNOTE 2 CIS PROLINE - PRO A 423 FTNOTE 3 CIS PROLINE - PRO A 465 HET MG 1 1 HET MG 2 1 HET MG 3 1 HET MG 4 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 4(MG 2+) HELIX 1 A0 TRP A 117 PHE A 121 1 5 HELIX 2 A1 ASN A 122 THR A 132 1 11 HELIX 3 B ILE A 246 SER A 249 1 4 SHEET 1 BDG 5 GLN A 48 LEU A 54 0 SHEET 2 BDG 5 TRP A 58 LEU A 71 -1 N GLU A 60 O LYS A 52 SHEET 3 BDG 5 THR A 523 LYS A 538 -1 N SER A 525 O LEU A 71 SHEET 4 BDG 5 SER A 134 LEU A 150 -1 O GLU A 135 N LYS A 538 SHEET 5 BDG 5 PHE A 261 PHE A 267 -1 N PHE A 261 O ILE A 145 SHEET 1 CDG 5 GLN A 48 LEU A 54 0 SHEET 2 CDG 5 TRP A 58 LEU A 71 -1 N GLU A 60 O LYS A 52 SHEET 3 CDG 5 THR A 523 LYS A 538 -1 N SER A 525 O LEU A 71 SHEET 4 CDG 5 SER A 134 LEU A 150 -1 O GLU A 135 N LYS A 538 SHEET 5 CDG 5 CYS A 273 LEU A 275 -1 N CYS A 273 O LEU A 136 SHEET 1 CHF 4 SER A 110 VAL A 112 0 SHEET 2 CHF 4 LEU A 498 LYS A 501 -1 N LEU A 498 O VAL A 112 SHEET 3 CHF 4 LEU A 173 LEU A 177 -1 N MET A 174 O LYS A 501 SHEET 4 CHF 4 VAL A 252 LEU A 255 -1 N HIS A 253 O VAL A 175 SHEET 1 CYL 2 LYS A 151 GLU A 155 0 SHEET 2 CYL 2 THR A 162 ASP A 168 -1 N THR A 162 O GLU A 155 SHEET 1 LP2 2 ALA A 103 LEU A 111 0 SHEET 2 LP2 2 THR A 206 TYR A 211 -1 N THR A 206 O LEU A 111 SHEET 1 L2 2 ASP A 215 LEU A 218 0 SHEET 2 L2 2 THR A 230 GLY A 235 -1 O GLY A 235 N ASP A 215 SHEET 1 LP4 2 ILE A 415 ASN A 417 0 SHEET 2 LP4 2 VAL A 429 LEU A 430 -1 O LEU A 430 N ILE A 415 SSBOND 1 CYS A 490 CYS A 494 CISPEP 1 TYR A 342 TYR A 343 0 -5.85 CISPEP 2 LEU A 422 PRO A 423 0 -0.51 CISPEP 3 TYR A 464 PRO A 465 0 0.96 CRYST1 263.210 349.010 267.320 90.00 90.82 90.00 P 1 21 1 120 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 -0.002201 0.000040 0.003096 -0.25392 SCALE2 -0.000086 0.002862 -0.000098 0.00000 SCALE3 -0.003079 -0.000166 -0.002120 -0.24723