HEADER VIRUS/DNA 03-NOV-03 1RB8 TITLE THE PHIX174 DNA BINDING PROTEIN J IN TWO DIFFERENT CAPSID TITLE 2 ENVIRONMENTS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSID PROTEIN; COMPND 3 CHAIN: F; COMPND 4 SYNONYM: F PROTEIN, GPF; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: MAJOR SPIKE PROTEIN; COMPND 7 CHAIN: G; COMPND 8 SYNONYM: G PROTEIN, GPG; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: SMALL CORE PROTEIN; COMPND 11 CHAIN: J; COMPND 12 SYNONYM: J PROTEIN; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: DNA (5'-D(P*CP*AP*AP*A)-3'); COMPND 16 CHAIN: X; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE ALPHA3; SOURCE 3 ORGANISM_TAXID: 10849; SOURCE 4 OTHER_DETAILS: WT ALPHA3 CAPSID PROTEIN F; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE ALPHA3; SOURCE 7 ORGANISM_TAXID: 10849; SOURCE 8 OTHER_DETAILS: WT ALPHA3 SPIKE PROTEIN G; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE PHIX174; SOURCE 11 ORGANISM_TAXID: 10847; SOURCE 12 GENE: J; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: RECA- CELLS; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: VIRUS; SOURCE 17 MOL_ID: 4; SOURCE 18 SYNTHETIC: YES KEYWDS BACTERIOPHAGE ALPHA3, BACTERIOPHAGE PHIX174, BACTERIOPHAGE ALPHA3 KEYWDS 2 CHIMERA, ALPHA3, PHIX174, THREE-DIMENTIONAL STRUCTURE, VIRION, KEYWDS 3 MICROVIRIDAE, ICOSAHEDRAL VIRUS, VIRUS-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.A.BERNAL,S.HAFENSTEIN,R.ESMERALDA,B.A.FANE,M.G.ROSSMANN REVDAT 6 03-APR-24 1RB8 1 REMARK REVDAT 5 19-APR-23 1RB8 1 REMARK CRYST1 MTRIX ATOM REVDAT 4 31-JAN-18 1RB8 1 REMARK REVDAT 3 11-OCT-17 1RB8 1 REMARK REVDAT 2 24-FEB-09 1RB8 1 VERSN REVDAT 1 13-APR-04 1RB8 0 JRNL AUTH R.A.BERNAL,S.HAFENSTEIN,R.ESMERALDA,B.A.FANE,M.G.ROSSMANN JRNL TITL THE PHIX174 PROTEIN J MEDIATES DNA PACKAGING AND VIRAL JRNL TITL 2 ATTACHMENT TO HOST CELLS. JRNL REF J.MOL.BIOL. V. 337 1109 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15046981 JRNL DOI 10.1016/J.JMB.2004.02.033 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.A.BERNAL,S.HAFENSTEIN,N.H.OLSON,V.D.BOWMAN,P.R.CHIPMAN, REMARK 1 AUTH 2 T.S.BAKER,B.A.FANE,M.G.ROSSMANN REMARK 1 TITL STRUCTURAL STUDIES OF BACTERIOPHAGE ALPHA3 ASSEMBLY REMARK 1 REF J.MOL.BIOL. V. 325 11 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1016/S0022-2836(02)01201-9 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.DOKLAND,R.A.BERNAL,A.BURCH,S.PLETNEV,B.A.FANE,M.G.ROSSMANN REMARK 1 TITL THE ROLE OF SCAFFOLDING PROTEINS IN THE ASSEMBLY OF THE REMARK 1 TITL 2 SMALL, SINGLE-STRANDED DNA VIRUS PHIX174. REMARK 1 REF J.MOL.BIOL. V. 288 595 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1999.2699 REMARK 1 REFERENCE 3 REMARK 1 AUTH R.MCKENNA,D.XIA,P.WILLINGMANN,L.L.ILAG,S.KRISHNASWAMY, REMARK 1 AUTH 2 M.G.ROSSMANN,N.H.OLSON,T.S.BAKER,N.L.INCARDONA REMARK 1 TITL ATOMIC STRUCTURE OF SINGLE-STRANDED DNA BACTERIOPHAGE PHI REMARK 1 TITL 2 X174 AND ITS FUNCTIONAL IMPLICATIONS. REMARK 1 REF NATURE V. 355 137 1992 REMARK 1 REFN ISSN 0028-0836 REMARK 1 DOI 10.1038/355137A0 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 112625.550 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 269234 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 SET) : 0.234 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 13533 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 30983 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 1737 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.007 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4992 REMARK 3 NUCLEIC ACID ATOMS : 54 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 1.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.28000 REMARK 3 B22 (A**2) : -3.28000 REMARK 3 B33 (A**2) : 6.55000 REMARK 3 B12 (A**2) : 4.11000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.44 REMARK 3 ESD FROM SIGMAA (A) : 0.41 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) : 0.44 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.43 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.950 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.31 REMARK 3 BSOL : 10.00 REMARK 3 REMARK 3 NCS MODEL : CONSTR 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE O3*-P BOND BETWEEN RESIDUE (X A 3 ) AND RESIDUE (X A 4 ) IS REMARK 3 1.91A. REMARK 3 THE DENSITY FOR THE NUCLEIC ACID IN THIS REGION IS VERY WEAK AND REMARK 3 THEREFORE REMARK 3 DIFFICULT TO INTERPRET. REMARK 4 REMARK 4 1RB8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000020636. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SNP REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 269234 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 500.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09700 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) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.15700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SNB, ENVELOPE REMARK 200 STARTING MODEL: BACTERIOPHAGE ALPHA3 WILD-TYPE STRUCTURE 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: 4-7% PEG 8000, 100 MM SODIUM CITRATE REMARK 280 PH 5.0, 40% GLYCEROL, 0.02% SODIUM AZIDE, 0.1% BETA-MERCAPTO- REMARK 280 ETHANOL, 0.9M NACL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 147.57150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 85.20045 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 226.07833 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 147.57150 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 85.20045 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 226.07833 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 147.57150 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 85.20045 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 226.07833 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 170.40089 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 452.15667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 170.40089 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 452.15667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 170.40089 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 452.15667 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 ICOSAHEDRAL POINT SYMMETRY (SCHOENFLIES SYMBOL = I). 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 APPLY THE FOLLOWING TO CHAINS: F, G, J, X 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 0.332601 -0.681926 0.651424 0.00000 REMARK 350 BIOMT2 2 0.829571 0.540091 0.141822 0.00000 REMARK 350 BIOMT3 2 -0.448540 0.493232 0.745341 0.00000 REMARK 350 BIOMT1 3 -0.747272 -0.273809 0.605485 0.00000 REMARK 350 BIOMT2 3 0.660348 -0.204057 0.722704 0.00000 REMARK 350 BIOMT3 3 -0.074329 0.939888 0.333295 0.00000 REMARK 350 BIOMT1 4 -0.747272 0.660348 -0.074330 0.00000 REMARK 350 BIOMT2 4 -0.273809 -0.204057 0.939888 0.00000 REMARK 350 BIOMT3 4 0.605486 0.722704 0.333295 0.00000 REMARK 350 BIOMT1 5 0.332601 0.829571 -0.448540 0.00000 REMARK 350 BIOMT2 5 -0.681926 0.540091 0.493232 0.00000 REMARK 350 BIOMT3 5 0.651424 0.141822 0.745341 0.00000 REMARK 350 BIOMT1 6 -0.843495 -0.429216 -0.322939 0.00000 REMARK 350 BIOMT2 6 -0.429216 0.177130 0.885663 0.00000 REMARK 350 BIOMT3 6 -0.322939 0.885663 -0.333635 0.00000 REMARK 350 BIOMT1 7 -0.491762 0.184102 -0.851044 0.00000 REMARK 350 BIOMT2 7 -0.393071 0.825197 0.405641 0.00000 REMARK 350 BIOMT3 7 0.776959 0.534000 -0.333435 0.00000 REMARK 350 BIOMT1 8 0.370893 0.015015 -0.928554 0.00000 REMARK 350 BIOMT2 8 0.371878 0.913802 0.163316 0.00000 REMARK 350 BIOMT3 8 0.850967 -0.405881 0.333339 0.00000 REMARK 350 BIOMT1 9 0.552309 -0.702805 -0.448352 0.00000 REMARK 350 BIOMT2 9 0.808498 0.320496 0.493573 0.00000 REMARK 350 BIOMT3 9 -0.203190 -0.635097 0.745229 0.00000 REMARK 350 BIOMT1 10 -0.198224 -0.977355 -0.074061 0.00000 REMARK 350 BIOMT2 10 0.313394 -0.134793 0.940008 0.00000 REMARK 350 BIOMT3 10 -0.928704 0.163122 0.333016 0.00000 REMARK 350 BIOMT1 11 0.292939 -0.227315 0.928717 0.00000 REMARK 350 BIOMT2 11 -0.227315 -0.960035 -0.163280 0.00000 REMARK 350 BIOMT3 11 0.928717 -0.163280 -0.332904 0.00000 REMARK 350 BIOMT1 12 -0.507709 0.135539 0.850800 0.00000 REMARK 350 BIOMT2 12 -0.798785 -0.444029 -0.405932 0.00000 REMARK 350 BIOMT3 12 0.322761 -0.885702 0.333704 0.00000 REMARK 350 BIOMT1 13 -0.438043 0.839066 0.322625 0.00000 REMARK 350 BIOMT2 13 -0.451954 0.104678 -0.885878 0.00000 REMARK 350 BIOMT3 13 -0.777081 -0.533865 0.333366 0.00000 REMARK 350 BIOMT1 14 0.405660 0.911014 0.074112 0.00000 REMARK 350 BIOMT2 14 0.333869 -0.072209 -0.939850 0.00000 REMARK 350 BIOMT3 14 -0.850865 0.406003 -0.333452 0.00000 REMARK 350 BIOMT1 15 0.857432 0.251955 0.448697 0.00000 REMARK 350 BIOMT2 15 0.472703 -0.730237 -0.493260 0.00000 REMARK 350 BIOMT3 15 0.203376 0.635037 -0.745229 0.00000 REMARK 350 BIOMT1 16 -0.449444 0.656531 -0.605778 0.00000 REMARK 350 BIOMT2 16 0.656531 -0.217095 -0.722382 0.00000 REMARK 350 BIOMT3 16 -0.605778 -0.722382 -0.333462 0.00000 REMARK 350 BIOMT1 17 0.666870 0.362285 -0.651179 0.00000 REMARK 350 BIOMT2 17 0.362285 -0.921259 -0.141530 0.00000 REMARK 350 BIOMT3 17 -0.651179 -0.141530 -0.745610 0.00000 REMARK 350 BIOMT1 18 0.814423 -0.580271 0.000444 0.00000 REMARK 350 BIOMT2 18 -0.580272 -0.814423 -0.000142 0.00000 REMARK 350 BIOMT3 18 0.000443 -0.000142 -1.000000 0.00000 REMARK 350 BIOMT1 19 -0.210697 -0.868557 0.448570 0.00000 REMARK 350 BIOMT2 19 -0.868557 -0.044230 -0.493611 0.00000 REMARK 350 BIOMT3 19 0.448570 -0.493611 -0.745073 0.00000 REMARK 350 BIOMT1 20 -0.991810 -0.104171 0.073904 0.00000 REMARK 350 BIOMT2 20 -0.104171 0.324939 -0.939980 0.00000 REMARK 350 BIOMT3 20 0.073904 -0.939980 -0.333129 0.00000 REMARK 350 BIOMT1 21 -0.500000 -0.866025 -0.000243 0.00000 REMARK 350 BIOMT2 21 0.866025 -0.500000 0.000324 0.00000 REMARK 350 BIOMT3 21 -0.000402 -0.000049 1.000000 0.00000 REMARK 350 BIOMT1 22 -0.884621 -0.126890 -0.448714 0.00000 REMARK 350 BIOMT2 22 -0.126890 -0.860451 0.493480 0.00000 REMARK 350 BIOMT3 22 -0.448714 0.493480 0.745073 0.00000 REMARK 350 BIOMT1 23 -0.198224 0.313394 -0.928704 0.00000 REMARK 350 BIOMT2 23 -0.977355 -0.134793 0.163122 0.00000 REMARK 350 BIOMT3 23 -0.074061 0.940008 0.333017 0.00000 REMARK 350 BIOMT1 24 0.610614 -0.153631 -0.776883 0.00000 REMARK 350 BIOMT2 24 -0.510056 0.674140 -0.534207 0.00000 REMARK 350 BIOMT3 24 0.605799 0.722449 0.333279 0.00000 REMARK 350 BIOMT1 25 0.424106 -0.882553 -0.203063 0.00000 REMARK 350 BIOMT2 25 0.629215 0.448430 -0.634822 0.00000 REMARK 350 BIOMT3 25 0.651323 0.141462 0.745498 0.00000 REMARK 350 BIOMT1 26 0.793538 0.060993 -0.605456 0.00000 REMARK 350 BIOMT2 26 -0.515985 -0.459990 -0.722612 0.00000 REMARK 350 BIOMT3 26 -0.322579 0.885827 -0.333548 0.00000 REMARK 350 BIOMT1 27 0.586102 -0.806823 0.074308 0.00000 REMARK 350 BIOMT2 27 -0.229091 -0.252989 -0.939954 0.00000 REMARK 350 BIOMT3 27 0.777176 0.533885 -0.333113 0.00000 REMARK 350 BIOMT1 28 -0.507709 -0.798785 0.322760 0.00000 REMARK 350 BIOMT2 28 0.135539 -0.444029 -0.885701 0.00000 REMARK 350 BIOMT3 28 0.850800 -0.405932 0.333704 0.00000 REMARK 350 BIOMT1 29 -0.976285 0.073999 -0.203452 0.00000 REMARK 350 BIOMT2 29 0.073999 -0.769100 -0.634830 0.00000 REMARK 350 BIOMT3 29 -0.203452 -0.634830 0.745385 0.00000 REMARK 350 BIOMT1 30 -0.172070 0.605372 -0.777121 0.00000 REMARK 350 BIOMT2 30 -0.328665 -0.778965 -0.534035 0.00000 REMARK 350 BIOMT3 30 -0.928640 0.163521 0.333000 0.00000 REMARK 350 BIOMT1 31 0.050165 0.945112 -0.322872 0.00000 REMARK 350 BIOMT2 31 0.367651 0.283104 0.885825 0.00000 REMARK 350 BIOMT3 31 0.928610 -0.163142 -0.333269 0.00000 REMARK 350 BIOMT1 32 0.945544 0.316987 -0.073934 0.00000 REMARK 350 BIOMT2 32 -0.040192 0.339108 0.939888 0.00000 REMARK 350 BIOMT3 32 0.323004 -0.885734 0.333382 0.00000 REMARK 350 BIOMT1 33 0.610614 -0.510056 0.605799 0.00000 REMARK 350 BIOMT2 33 -0.153631 0.674140 0.722449 0.00000 REMARK 350 BIOMT3 33 -0.776883 -0.534207 0.333279 0.00000 REMARK 350 BIOMT1 34 -0.491762 -0.393071 0.776959 0.00000 REMARK 350 BIOMT2 34 0.184102 0.825197 0.534000 0.00000 REMARK 350 BIOMT3 34 -0.851044 0.405641 -0.333435 0.00000 REMARK 350 BIOMT1 35 -0.838138 0.506272 0.203008 0.00000 REMARK 350 BIOMT2 35 0.506272 0.583523 0.634971 0.00000 REMARK 350 BIOMT3 35 0.203008 0.634971 -0.745385 0.00000 REMARK 350 BIOMT1 36 -0.343704 -0.140080 0.928572 0.00000 REMARK 350 BIOMT2 36 -0.717691 0.676886 -0.163536 0.00000 REMARK 350 BIOMT3 36 -0.605629 -0.722636 -0.333183 0.00000 REMARK 350 BIOMT1 37 -0.647024 0.616726 0.448340 0.00000 REMARK 350 BIOMT2 37 0.396173 0.774332 -0.493414 0.00000 REMARK 350 BIOMT3 37 -0.651465 -0.141631 -0.745342 0.00000 REMARK 350 BIOMT1 38 0.095318 0.995447 0.000144 0.00000 REMARK 350 BIOMT2 38 0.995447 -0.095318 0.000131 0.00000 REMARK 350 BIOMT3 38 0.000144 0.000131 -1.000000 0.00000 REMARK 350 BIOMT1 39 0.857432 0.472703 0.203376 0.00000 REMARK 350 BIOMT2 39 0.251955 -0.730237 0.635037 0.00000 REMARK 350 BIOMT3 39 0.448697 -0.493260 -0.745229 0.00000 REMARK 350 BIOMT1 40 0.586102 -0.229091 0.777176 0.00000 REMARK 350 BIOMT2 40 -0.806823 -0.252989 0.533885 0.00000 REMARK 350 BIOMT3 40 0.074308 -0.939954 -0.333113 0.00000 REMARK 350 BIOMT1 41 -0.500000 0.866025 -0.000402 0.00000 REMARK 350 BIOMT2 41 -0.866025 -0.500000 -0.000049 0.00000 REMARK 350 BIOMT3 41 -0.000243 0.000324 1.000000 0.00000 REMARK 350 BIOMT1 42 0.552309 0.808497 -0.203190 0.00000 REMARK 350 BIOMT2 42 -0.702805 0.320496 -0.635097 0.00000 REMARK 350 BIOMT3 42 -0.448352 0.493573 0.745229 0.00000 REMARK 350 BIOMT1 43 0.945544 -0.040192 0.323004 0.00000 REMARK 350 BIOMT2 43 0.316987 0.339108 -0.885734 0.00000 REMARK 350 BIOMT3 43 -0.073934 0.939888 0.333382 0.00000 REMARK 350 BIOMT1 44 0.136267 -0.507183 0.850997 0.00000 REMARK 350 BIOMT2 44 0.784032 -0.469885 -0.405589 0.00000 REMARK 350 BIOMT3 44 0.605579 0.722478 0.333618 0.00000 REMARK 350 BIOMT1 45 -0.757128 0.052890 0.651122 0.00000 REMARK 350 BIOMT2 45 0.052890 -0.988482 0.141795 0.00000 REMARK 350 BIOMT3 45 0.651122 0.141795 0.745610 0.00000 REMARK 350 BIOMT1 46 0.050165 0.367651 0.928610 0.00000 REMARK 350 BIOMT2 46 0.945112 0.283104 -0.163142 0.00000 REMARK 350 BIOMT3 46 -0.322872 0.885824 -0.333269 0.00000 REMARK 350 BIOMT1 47 -0.094841 0.622376 0.776951 0.00000 REMARK 350 BIOMT2 47 0.622376 -0.572062 0.534222 0.00000 REMARK 350 BIOMT3 47 0.776951 0.534222 -0.333097 0.00000 REMARK 350 BIOMT1 48 0.136267 0.784032 0.605579 0.00000 REMARK 350 BIOMT2 48 -0.507183 -0.469885 0.722478 0.00000 REMARK 350 BIOMT3 48 0.850998 -0.405589 0.333618 0.00000 REMARK 350 BIOMT1 49 0.424106 0.629215 0.651323 0.00000 REMARK 350 BIOMT2 49 -0.882553 0.448430 0.141462 0.00000 REMARK 350 BIOMT3 49 -0.203063 -0.634822 0.745498 0.00000 REMARK 350 BIOMT1 50 0.370893 0.371878 0.850967 0.00000 REMARK 350 BIOMT2 50 0.015015 0.913802 -0.405881 0.00000 REMARK 350 BIOMT3 50 -0.928554 0.163316 0.333339 0.00000 REMARK 350 BIOMT1 51 -0.343704 -0.717691 -0.605629 0.00000 REMARK 350 BIOMT2 51 -0.140080 0.676886 -0.722636 0.00000 REMARK 350 BIOMT3 51 0.928572 -0.163536 -0.333183 0.00000 REMARK 350 BIOMT1 52 -0.438043 -0.451954 -0.777081 0.00000 REMARK 350 BIOMT2 52 0.839066 0.104678 -0.533865 0.00000 REMARK 350 BIOMT3 52 0.322625 -0.885878 0.333366 0.00000 REMARK 350 BIOMT1 53 -0.172070 -0.328665 -0.928640 0.00000 REMARK 350 BIOMT2 53 0.605372 -0.778965 0.163521 0.00000 REMARK 350 BIOMT3 53 -0.777121 -0.534035 0.333000 0.00000 REMARK 350 BIOMT1 54 0.086651 -0.518205 -0.850856 0.00000 REMARK 350 BIOMT2 54 -0.518205 -0.752877 0.405758 0.00000 REMARK 350 BIOMT3 54 -0.850856 0.405758 -0.333774 0.00000 REMARK 350 BIOMT1 55 -0.019425 -0.758637 -0.651224 0.00000 REMARK 350 BIOMT2 55 -0.978920 0.146888 -0.141917 0.00000 REMARK 350 BIOMT3 55 0.203321 0.634739 -0.745498 0.00000 REMARK 350 BIOMT1 56 0.793538 -0.515985 -0.322578 0.00000 REMARK 350 BIOMT2 56 0.060994 -0.459990 0.885827 0.00000 REMARK 350 BIOMT3 56 -0.605456 -0.722612 -0.333548 0.00000 REMARK 350 BIOMT1 57 -0.019425 -0.978919 0.203321 0.00000 REMARK 350 BIOMT2 57 -0.758637 0.146888 0.634739 0.00000 REMARK 350 BIOMT3 57 -0.651224 -0.141917 -0.745498 0.00000 REMARK 350 BIOMT1 58 -0.909741 -0.415175 0.000057 0.00000 REMARK 350 BIOMT2 58 -0.415175 0.909741 -0.000264 0.00000 REMARK 350 BIOMT3 58 0.000057 -0.000264 -1.000000 0.00000 REMARK 350 BIOMT1 59 -0.647024 0.396173 -0.651465 0.00000 REMARK 350 BIOMT2 59 0.616726 0.774332 -0.141631 0.00000 REMARK 350 BIOMT3 59 0.448340 -0.493414 -0.745341 0.00000 REMARK 350 BIOMT1 60 0.405660 0.333869 -0.850865 0.00000 REMARK 350 BIOMT2 60 0.911014 -0.072209 0.406003 0.00000 REMARK 350 BIOMT3 60 0.074112 -0.939850 -0.333451 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 THE VIRUS IS A CHIMERA. THE CAPSID PROTEIN F AND REMARK 400 THE SPIKE PROTEIN G ARE FROM ALPHA3 BUT THE J PROTEIN REMARK 400 WAS REPLACED BY THE J PROTEIN OF PHIX174. 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 F 1 REMARK 465 SER F 2 REMARK 465 ASN F 3 REMARK 465 VAL F 4 REMARK 465 GLN F 5 REMARK 465 THR F 6 REMARK 465 SER F 7 REMARK 465 ALA F 8 REMARK 465 GLU F 9 REMARK 465 SER J 1 REMARK 465 LYS J 2 REMARK 465 GLY J 3 REMARK 465 LYS J 4 REMARK 465 LYS J 5 REMARK 465 ARG J 6 REMARK 465 SER J 7 REMARK 465 GLY J 8 REMARK 465 GLY J 22 REMARK 465 LYS J 23 REMARK 465 ARG J 24 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 DC X 1 N1 C2 O2 N3 C4 N4 C5 REMARK 470 DC X 1 C6 REMARK 470 DA X 3 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA X 3 C2 N3 C4 REMARK 470 DA X 4 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA X 4 C2 N3 C4 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 DISTANCE REMARK 500 OE1 GLU F 208 N1 DA X 2 1.48 REMARK 500 OE1 GLU F 208 C2 DA X 2 1.58 REMARK 500 N7 DA X 2 C1' DA X 4 1.90 REMARK 500 OP2 DC X 1 C5' DC X 8 2.02 REMARK 500 O THR G 42 N GLU G 44 2.10 REMARK 500 C8 DA X 2 C1' DA X 4 2.14 REMARK 500 OP2 DC X 1 C4' DC X 8 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 DC X 1 O3' DA X 2 P -0.134 REMARK 500 DA X 2 O3' DA X 3 P -0.081 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 ARG G 45 N - CA - C ANGL. DEV. = -19.1 DEGREES REMARK 500 PRO J 14 C - N - CA ANGL. DEV. = 9.6 DEGREES REMARK 500 DC X 1 OP1 - P - OP2 ANGL. DEV. = -21.6 DEGREES REMARK 500 DC X 1 C3' - O3' - P ANGL. DEV. = 26.5 DEGREES REMARK 500 DA X 2 O3' - P - OP2 ANGL. DEV. = 9.7 DEGREES REMARK 500 DA X 2 O3' - P - OP1 ANGL. DEV. = -16.5 DEGREES REMARK 500 DA X 2 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA X 2 C3' - O3' - P ANGL. DEV. = -42.4 DEGREES REMARK 500 DA X 3 O3' - P - O5' ANGL. DEV. = -35.8 DEGREES REMARK 500 DA X 3 O3' - P - OP2 ANGL. DEV. = 35.9 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 F 22 153.78 175.92 REMARK 500 LEU F 25 -89.38 -51.17 REMARK 500 PRO F 54 136.14 -39.87 REMARK 500 ARG F 57 -163.00 -122.58 REMARK 500 ALA F 60 -67.54 -102.82 REMARK 500 VAL F 90 15.16 -62.63 REMARK 500 ALA F 92 132.90 -21.13 REMARK 500 ARG F 102 49.24 -70.11 REMARK 500 HIS F 106 28.06 -59.03 REMARK 500 TYR F 135 -29.78 -145.04 REMARK 500 GLU F 146 118.94 -24.73 REMARK 500 GLU F 154 -76.30 -29.30 REMARK 500 PRO F 175 125.55 -37.58 REMARK 500 ALA F 181 140.44 -177.50 REMARK 500 GLU F 187 -141.57 -67.71 REMARK 500 GLN F 255 -48.44 -26.86 REMARK 500 GLN F 266 88.95 -173.45 REMARK 500 ARG F 275 132.28 -38.81 REMARK 500 PRO F 294 64.01 -64.32 REMARK 500 ASP F 313 -75.23 -96.00 REMARK 500 PRO F 326 177.69 -58.23 REMARK 500 LYS F 362 -31.54 -36.68 REMARK 500 PRO F 370 35.24 -75.28 REMARK 500 ALA F 375 129.97 -35.85 REMARK 500 ASP F 382 45.16 -66.72 REMARK 500 SER F 401 99.78 -176.45 REMARK 500 GLN F 402 60.25 -67.08 REMARK 500 LEU F 405 -162.50 53.73 REMARK 500 THR G 7 143.80 -170.58 REMARK 500 ALA G 12 151.38 -37.96 REMARK 500 ILE G 13 -96.30 -89.46 REMARK 500 PRO G 29 -9.99 -57.13 REMARK 500 ILE G 36 29.45 -56.41 REMARK 500 THR G 42 -72.26 -102.43 REMARK 500 ALA G 43 -4.69 -30.76 REMARK 500 TYR G 51 75.46 -153.84 REMARK 500 VAL G 56 52.53 -101.81 REMARK 500 THR G 58 -117.50 -104.59 REMARK 500 SER G 63 141.13 -179.36 REMARK 500 TYR G 94 76.06 50.98 REMARK 500 PRO G 95 -179.83 -62.63 REMARK 500 SER G 104 130.37 -178.36 REMARK 500 ALA G 134 139.40 -171.17 REMARK 500 SER G 147 100.86 -42.08 REMARK 500 SER G 164 131.72 -36.79 REMARK 500 ILE G 177 12.52 -140.96 REMARK 500 PRO G 185 -30.93 -38.29 REMARK 500 PRO J 14 121.54 -21.27 REMARK 500 THR J 20 34.00 -92.43 REMARK 500 ARG J 28 150.45 -46.91 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 DC X 5 REMARK 610 DC X 6 REMARK 610 DC X 7 REMARK 610 DC X 8 REMARK 610 DC X 9 REMARK 610 DC X 10 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DC X 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DC X 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DC X 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DC X 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DC X 10 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1M06 RELATED DB: PDB REMARK 900 WILD TYPE ALPHA3 VIRION REMARK 900 RELATED ID: 1M0F RELATED DB: PDB REMARK 900 WILD TYPE ALPHA3 PROCAPSID REMARK 900 RELATED ID: 2BPA RELATED DB: PDB REMARK 900 WILD TYPE PHIX174 VIRION REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE 160 OF THE F PROTEIN IS AN ARG ACCORDING REMARK 999 TO THE REPORTED SEQUENCE BUT NO DENSITY IS SEEN REMARK 999 FOR THE SIDE CHAIN IN THE CRYSTAL STRUCTURE FOR REMARK 999 THIS RESIDUE. AFTER A STRUCTURAL SEQUENCE REMARK 999 ALIGNMENT WITH HOMOLOGOUS BACTERIOPHAGES PHIX174 REMARK 999 AND G4, RESIDUE 160 WAS FOUND TO BE A GLYCINE REMARK 999 IN THE OTHER PHAGES. CONSEQUENTLY, THE AUTHORS REMARK 999 STATE RESIDUE 160 SHOULD BE A GLYCINE. DBREF 1RB8 F 1 431 UNP P08767 VGF_BPAL3 1 431 DBREF 1RB8 G 1 187 UNP P31281 VGG_BPAL3 1 187 DBREF 1RB8 J 1 37 UNP P69592 VGJ_BPPHX 1 37 DBREF 1RB8 X 1 4 PDB 1RB8 1RB8 1 4 SEQADV 1RB8 GLY F 160 UNP P08767 ARG 160 SEE REMARK 999 SEQRES 1 F 431 MET SER ASN VAL GLN THR SER ALA GLU ARG GLU ILE VAL SEQRES 2 F 431 ASP LEU SER HIS LEU ALA PHE ASP CYS GLY MET LEU GLY SEQRES 3 F 431 ARG LEU LYS THR VAL SER TRP THR PRO VAL ILE ALA GLY SEQRES 4 F 431 ASP SER PHE GLU LEU ASP ALA VAL GLY ALA LEU ARG LEU SEQRES 5 F 431 SER PRO LEU ARG ARG GLY LEU ALA ILE ASP SER LYS VAL SEQRES 6 F 431 ASP PHE PHE THR PHE TYR ILE PRO HIS ARG HIS VAL TYR SEQRES 7 F 431 GLY ASP GLN TRP ILE GLN PHE MET ARG ASP GLY VAL ASN SEQRES 8 F 431 ALA GLN PRO LEU PRO SER VAL THR CYS ASN ARG TYR PRO SEQRES 9 F 431 ASP HIS ALA GLY TYR VAL GLY THR ILE VAL PRO ALA ASN SEQRES 10 F 431 ASN ARG ILE PRO LYS PHE LEU HIS GLN SER TYR LEU ASN SEQRES 11 F 431 ILE TYR ASN ASN TYR PHE ARG ALA PRO TRP MET PRO GLU SEQRES 12 F 431 ARG THR GLU ALA ASN PRO SER ASN LEU ASN GLU ASP ASP SEQRES 13 F 431 ALA ARG TYR GLY PHE ARG CYS CYS HIS LEU LYS ASN ILE SEQRES 14 F 431 TRP SER ALA PRO LEU PRO PRO GLU THR LYS LEU ALA GLU SEQRES 15 F 431 GLU MET GLY ILE GLU SER ASN SER ILE ASP ILE MET GLY SEQRES 16 F 431 LEU GLN ALA ALA TYR ALA GLN LEU HIS THR GLU GLN GLU SEQRES 17 F 431 ARG THR TYR PHE MET GLN ARG TYR ARG ASP VAL ILE SER SEQRES 18 F 431 SER PHE GLY GLY SER THR SER TYR ASP ALA ASP ASN ARG SEQRES 19 F 431 PRO LEU LEU VAL MET HIS THR ASP PHE TRP ALA SER GLY SEQRES 20 F 431 TYR ASP VAL ASP GLY THR ASP GLN SER SER LEU GLY GLN SEQRES 21 F 431 PHE SER GLY ARG VAL GLN GLN THR PHE LYS HIS SER VAL SEQRES 22 F 431 PRO ARG PHE PHE VAL PRO GLU HIS GLY VAL MET MET THR SEQRES 23 F 431 LEU ALA LEU ILE ARG PHE PRO PRO ILE SER PRO LEU GLU SEQRES 24 F 431 HIS HIS TYR LEU ALA GLY LYS SER GLN LEU THR TYR THR SEQRES 25 F 431 ASP LEU ALA GLY ASP PRO ALA LEU ILE GLY ASN LEU PRO SEQRES 26 F 431 PRO ARG GLU ILE SER TYR ARG ASP LEU PHE ARG ASP GLY SEQRES 27 F 431 ARG SER GLY ILE LYS ILE LYS VAL ALA GLU SER ILE TRP SEQRES 28 F 431 TYR ARG THR HIS PRO ASP TYR VAL ASN PHE LYS TYR HIS SEQRES 29 F 431 ASP LEU HIS GLY PHE PRO PHE LEU ASP ASP ALA PRO GLY SEQRES 30 F 431 THR SER THR GLY ASP ASN LEU GLN GLU ALA ILE LEU VAL SEQRES 31 F 431 ARG HIS GLN ASP TYR ASP ALA CYS PHE GLN SER GLN GLN SEQRES 32 F 431 LEU LEU GLN TRP ASN LYS GLN ALA ARG TYR ASN VAL SER SEQRES 33 F 431 VAL TYR ARG HIS MET PRO THR VAL ARG ASP SER ILE MET SEQRES 34 F 431 THR SER SEQRES 1 G 187 MET TYR GLN ASN PHE VAL THR LYS HIS ASP THR ALA ILE SEQRES 2 G 187 GLN THR SER ARG PHE SER VAL THR GLY ASN VAL ILE PRO SEQRES 3 G 187 ALA ALA PRO THR GLY ASN ILE PRO VAL ILE ASN GLY GLY SEQRES 4 G 187 SER ILE THR ALA GLU ARG ALA VAL VAL ASN LEU TYR ALA SEQRES 5 G 187 ASN MET ASN VAL SER THR SER SER ASP GLY SER PHE ILE SEQRES 6 G 187 VAL ALA MET LYS VAL ASP THR SER PRO THR ASP PRO ASN SEQRES 7 G 187 CYS VAL ILE SER ALA GLY VAL ASN LEU SER PHE ALA GLY SEQRES 8 G 187 THR SER TYR PRO ILE VAL GLY ILE VAL ARG PHE GLU SER SEQRES 9 G 187 ALA SER GLU GLN PRO THR SER ILE ALA GLY SER GLU VAL SEQRES 10 G 187 GLU HIS TYR PRO ILE GLU MET SER VAL GLY SER GLY GLY SEQRES 11 G 187 VAL CYS SER ALA ARG ASP CYS ALA THR VAL ASP ILE HIS SEQRES 12 G 187 PRO ARG THR SER GLY ASN ASN VAL PHE VAL GLY VAL ILE SEQRES 13 G 187 CYS SER SER ALA LYS TRP THR SER GLY ARG VAL ILE GLY SEQRES 14 G 187 THR ILE ALA THR THR GLN VAL ILE HIS GLU TYR GLN VAL SEQRES 15 G 187 LEU GLN PRO LEU LYS SEQRES 1 J 37 SER LYS GLY LYS LYS ARG SER GLY ALA ARG PRO GLY ARG SEQRES 2 J 37 PRO GLN PRO LEU ARG GLY THR LYS GLY LYS ARG LYS GLY SEQRES 3 J 37 ALA ARG LEU TRP TYR VAL GLY GLY GLN GLN PHE SEQRES 1 X 4 DC DA DA DA HET DC X 5 11 HET DC X 6 11 HET DC X 7 11 HET DC X 8 11 HET DC X 9 11 HET DC X 10 11 HETNAM DC 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE FORMUL 5 DC 6(C9 H14 N3 O7 P) HELIX 1 1 HIS F 74 GLY F 79 1 6 HELIX 2 2 GLY F 79 GLY F 89 1 11 HELIX 3 3 VAL F 90 ALA F 92 5 3 HELIX 4 4 ALA F 107 GLY F 111 5 5 HELIX 5 5 LYS F 122 PHE F 136 1 15 HELIX 6 6 ASN F 153 GLY F 160 1 8 HELIX 7 7 ASP F 192 MET F 213 1 22 HELIX 8 8 ARG F 215 GLY F 224 1 10 HELIX 9 9 HIS F 301 LYS F 306 1 6 HELIX 10 10 THR F 310 ALA F 315 1 6 HELIX 11 11 ASP F 317 GLY F 322 1 6 HELIX 12 12 ARG F 332 LEU F 334 5 3 HELIX 13 13 SER F 349 ARG F 353 5 5 HELIX 14 14 ASN F 360 LEU F 366 5 7 HELIX 15 15 ASN F 383 LEU F 389 1 7 HELIX 16 16 HIS F 392 ALA F 397 1 6 HELIX 17 17 THR F 423 MET F 429 1 7 HELIX 18 18 SER G 115 VAL G 117 5 3 SHEET 1 A 3 GLU F 11 ASP F 14 0 SHEET 2 A 3 TRP F 407 ARG F 419 -1 O VAL F 417 N VAL F 13 SHEET 3 A 3 HIS F 17 GLY F 23 -1 N ASP F 21 O LYS F 409 SHEET 1 B 5 GLU F 11 ASP F 14 0 SHEET 2 B 5 TRP F 407 ARG F 419 -1 O VAL F 417 N VAL F 13 SHEET 3 B 5 SER F 41 LEU F 52 -1 N VAL F 47 O ARG F 412 SHEET 4 B 5 PHE F 261 PHE F 277 -1 O GLN F 267 N LEU F 50 SHEET 5 B 5 GLY F 247 ASP F 251 -1 N TYR F 248 O ARG F 264 SHEET 1 C 4 LYS F 29 VAL F 36 0 SHEET 2 C 4 GLY F 282 ARG F 291 -1 O GLY F 282 N VAL F 36 SHEET 3 C 4 SER F 63 PRO F 73 -1 N PHE F 70 O MET F 285 SHEET 4 C 4 LEU F 236 ALA F 245 -1 O PHE F 243 N VAL F 65 SHEET 1 D 2 SER F 97 THR F 99 0 SHEET 2 D 2 ARG F 119 PRO F 121 -1 O ILE F 120 N VAL F 98 SHEET 1 E 2 ARG F 327 SER F 330 0 SHEET 2 E 2 LYS F 343 VAL F 346 -1 O ILE F 344 N ILE F 329 SHEET 1 F 6 ARG G 17 VAL G 24 0 SHEET 2 F 6 ARG G 45 MET G 54 1 O ASN G 53 N GLY G 22 SHEET 3 F 6 GLY G 165 GLN G 175 -1 O THR G 173 N ALA G 46 SHEET 4 F 6 ASN G 78 PHE G 89 -1 N SER G 82 O THR G 174 SHEET 5 F 6 VAL G 131 ASP G 141 -1 O ASP G 136 N ALA G 83 SHEET 6 F 6 VAL G 126 GLY G 127 -1 N VAL G 126 O SER G 133 SHEET 1 G 2 ASN G 32 PRO G 34 0 SHEET 2 G 2 SER G 111 ALA G 113 -1 O ILE G 112 N ILE G 33 SHEET 1 H 4 GLY G 62 LYS G 69 0 SHEET 2 H 4 ASN G 150 SER G 159 -1 O CYS G 157 N PHE G 64 SHEET 3 H 4 ILE G 96 SER G 104 -1 N VAL G 100 O GLY G 154 SHEET 4 H 4 GLU G 118 TYR G 120 -1 O TYR G 120 N ILE G 99 SITE 1 AC1 8 VAL F 13 ASP F 14 SER F 16 GLU F 43 SITE 2 AC1 8 VAL F 415 SER F 416 VAL F 417 DA X 4 SITE 1 AC2 2 PRO F 274 ARG F 275 SITE 1 AC3 1 PHE F 277 SITE 1 AC4 5 ALA F 38 GLY F 39 HIS F 420 GLN J 36 SITE 2 AC4 5 DC X 1 SITE 1 AC5 1 LYS J 21 CRYST1 295.143 295.143 678.235 90.00 90.00 120.00 H 3 180 ORIGX1 0.804033 -0.141359 0.577536 0.00000 ORIGX2 0.524670 0.625662 -0.577295 0.00000 ORIGX3 -0.279736 0.767180 0.577220 0.00000 SCALE1 0.003388 0.001956 0.000000 0.00000 SCALE2 0.000000 0.003912 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001474 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.332601 -0.681926 0.651424 0.00000 MTRIX2 2 0.829571 0.540091 0.141822 0.00000 MTRIX3 2 -0.448540 0.493232 0.745341 0.00000 MTRIX1 3 -0.747272 -0.273809 0.605485 0.00000 MTRIX2 3 0.660348 -0.204057 0.722704 0.00000 MTRIX3 3 -0.074329 0.939888 0.333295 0.00000 MTRIX1 4 -0.747272 0.660348 -0.074330 0.00000 MTRIX2 4 -0.273809 -0.204057 0.939888 0.00000 MTRIX3 4 0.605486 0.722704 0.333295 0.00000 MTRIX1 5 0.332601 0.829571 -0.448540 0.00000 MTRIX2 5 -0.681926 0.540091 0.493232 0.00000 MTRIX3 5 0.651424 0.141822 0.745341 0.00000 MTRIX1 6 -0.843495 -0.429216 -0.322939 0.00000 MTRIX2 6 -0.429216 0.177130 0.885663 0.00000 MTRIX3 6 -0.322939 0.885663 -0.333635 0.00000 MTRIX1 7 -0.491762 0.184102 -0.851044 0.00000 MTRIX2 7 -0.393071 0.825197 0.405641 0.00000 MTRIX3 7 0.776959 0.534000 -0.333435 0.00000 MTRIX1 8 0.370893 0.015015 -0.928554 0.00000 MTRIX2 8 0.371878 0.913802 0.163316 0.00000 MTRIX3 8 0.850967 -0.405881 0.333339 0.00000 MTRIX1 9 0.552309 -0.702805 -0.448352 0.00000 MTRIX2 9 0.808498 0.320496 0.493573 0.00000 MTRIX3 9 -0.203190 -0.635097 0.745229 0.00000 MTRIX1 10 -0.198224 -0.977355 -0.074061 0.00000 MTRIX2 10 0.313394 -0.134793 0.940008 0.00000 MTRIX3 10 -0.928704 0.163122 0.333016 0.00000 MTRIX1 11 0.292939 -0.227315 0.928717 0.00000 MTRIX2 11 -0.227315 -0.960035 -0.163280 0.00000 MTRIX3 11 0.928717 -0.163280 -0.332904 0.00000 MTRIX1 12 -0.507709 0.135539 0.850800 0.00000 MTRIX2 12 -0.798785 -0.444029 -0.405932 0.00000 MTRIX3 12 0.322761 -0.885701 0.333704 0.00000 MTRIX1 13 -0.438043 0.839066 0.322625 0.00000 MTRIX2 13 -0.451954 0.104678 -0.885878 0.00000 MTRIX3 13 -0.777081 -0.533865 0.333366 0.00000 MTRIX1 14 0.405660 0.911014 0.074112 0.00000 MTRIX2 14 0.333869 -0.072209 -0.939850 0.00000 MTRIX3 14 -0.850865 0.406003 -0.333452 0.00000 MTRIX1 15 0.857432 0.251955 0.448697 0.00000 MTRIX2 15 0.472703 -0.730237 -0.493260 0.00000 MTRIX3 15 0.203376 0.635037 -0.745229 0.00000 MTRIX1 16 -0.449444 0.656531 -0.605778 0.00000 MTRIX2 16 0.656531 -0.217095 -0.722382 0.00000 MTRIX3 16 -0.605778 -0.722382 -0.333461 0.00000 MTRIX1 17 0.666870 0.362285 -0.651179 0.00000 MTRIX2 17 0.362285 -0.921259 -0.141530 0.00000 MTRIX3 17 -0.651179 -0.141530 -0.745610 0.00000 MTRIX1 18 0.814423 -0.580271 0.000444 0.00000 MTRIX2 18 -0.580272 -0.814423 -0.000142 0.00000 MTRIX3 18 0.000443 -0.000142 -1.000000 0.00000 MTRIX1 19 -0.210697 -0.868557 0.448570 0.00000 MTRIX2 19 -0.868557 -0.044230 -0.493611 0.00000 MTRIX3 19 0.448570 -0.493611 -0.745073 0.00000 MTRIX1 20 -0.991810 -0.104171 0.073904 0.00000 MTRIX2 20 -0.104171 0.324939 -0.939980 0.00000 MTRIX3 20 0.073904 -0.939980 -0.333129 0.00000