PDB Short entry for 3PDM HEADER VIRUS 22-OCT-10 3PDM TITLE HIBISCUS LATENT SINGAPORE VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(P*GP*AP*A)-3'); COMPND 3 CHAIN: R; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: COAT PROTEIN; COMPND 7 CHAIN: P SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHETIC RNA; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HIBISCUS LATENT SINGAPORE VIRUS; SOURCE 6 ORGANISM_TAXID: 185955 KEYWDS HELICAL VIRUS, VIRUS-RNA COMPLEX, VIRUS EXPDTA FIBER DIFFRACTION AUTHOR S.K.TEWARY,S.M.WONG,K.SWAMINATHAN REVDAT 4 20-MAR-24 3PDM 1 REMARK REVDAT 3 08-NOV-17 3PDM 1 REMARK REVDAT 2 19-JAN-11 3PDM 1 TITLE JRNL REVDAT 1 12-JAN-11 3PDM 0 JRNL AUTH S.K.TEWARY,T.ODA,A.KENDALL,W.BIAN,G.STUBBS,S.M.WONG, JRNL AUTH 2 K.SWAMINATHAN JRNL TITL STRUCTURE OF HIBISCUS LATENT SINGAPORE VIRUS BY FIBER JRNL TITL 2 DIFFRACTION: A NON-CONSERVED HIS122 CONTRIBUTES TO COAT JRNL TITL 3 PROTEIN STABILITY JRNL REF J.MOL.BIOL. 2010 JRNL REFN ESSN 1089-8638 JRNL PMID 21195089 JRNL DOI 10.1016/J.JMB.2010.12.032 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 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 : 3486 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) : 0.096 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 : 1277 REMARK 3 NUCLEIC ACID ATOMS : 64 REMARK 3 HETEROGEN ATOMS : 0 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: THE STRUCTURE WAS DETERMINED BY FIBER REMARK 3 DIFFRACTION USING MOLECULAR REPLACEMENT WITH LAYER-LINE REMARK 3 SPLITTING, SOLVENT FLATTENING REFINEMENT AND RESTRAINED LEAST REMARK 3 SQUARES COORDINATE REFINEMENT. THE STRUCTURE INCLUDES 162 OF THE REMARK 3 163 AMINO ACIDS AND THREE RNA NUCLEOTIDES MODELLED AS GAA BUT REMARK 3 REPRESENTING THE ENTIRE NUCLEIC ACID CONTENT. REMARK 4 REMARK 4 3PDM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1000062249. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : FIBER DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL 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) : 0.9002 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : WCEN, RAD, CORR REMARK 200 DATA SCALING SOFTWARE : WCEN, RAD, CORR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 3486 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 205 REMARK 205 FIBER DIFFRACTION REMARK 205 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM FIBER REMARK 205 DIFFRACTION DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 205 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE REMARK 205 VALUES ON THESE RECORDS ARE MEANINGLESS. 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 REMARK: HLSV IS A ROD-SHAPED VIRUS 3000 ANGSTROMS LONG AND 180 REMARK 300 ANGSTROMS IN DIAMETER, WITH A CENTRAL HOLE OF DIAMETER 40 REMARK 300 ANGSTROMS. APPROXIMATELY 2150 IDENTICAL PROTEIN SUBUNITS REMARK 300 OF MOLECULAR WEIGHT 17500 FORM A RIGHT-HANDED HELIX OF REMARK 300 PITCH 23.5 ANGSTROMS AND LENGTH 70.5 ANGTROMS WITH 49 SUBUNITS REMARK 300 IN THREE TURNS. A SINGLE STRAND OF RNA FOLLOWS THE BASIC REMARK 300 HELIX BETWEEN THE PROTEIN SUBUNITS AT A DISTANCE OF 40 REMARK 300 ANGSTROMS. THERE ARE THREE NUCLEOTIDES BOUND TO EACH REMARK 300 PROTEIN SUBUNIT. REMARK 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 HELICAL SYMMETRY WITH THE FOLLOWING PARAMETERS: REMARK 300 ROTATION PER SUBUNIT (TWIST) = 1080.00/49 DEGREES REMARK 300 RISE PER SUBUNIT (HEIGHT) = 70.5/49 ANGSTROMS REMARK 300 REMARK 300 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 300 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 300 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 300 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 300 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 HELICAL SYMMETRY WITH THE FOLLOWING PARAMETERS: REMARK 300 ROTATION PER SUBUNIT (TWIST) = 22.04 DEGREES REMARK 300 RISE PER SUBUNIT (HEIGHT) = 1.44 ANGSTROMS 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: R, P REMARK 350 BIOMT1 1 -0.981574 0.191083 0.000000 0.00000 REMARK 350 BIOMT2 1 -0.191083 -0.981574 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 -34.53600 REMARK 350 BIOMT1 2 -0.838128 0.545473 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.545473 -0.838128 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -33.09700 REMARK 350 BIOMT1 3 -0.572175 0.820132 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.820132 -0.572175 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 -31.65800 REMARK 350 BIOMT1 4 -0.222587 0.974913 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.974913 -0.222587 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 -30.21900 REMARK 350 BIOMT1 5 0.159537 0.987192 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.987192 0.159537 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 -28.78000 REMARK 350 BIOMT1 6 0.518340 0.855174 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.855174 0.518340 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 -27.34100 REMARK 350 BIOMT1 7 0.801379 0.598157 0.000000 0.00000 REMARK 350 BIOMT2 7 -0.598157 0.801379 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 -25.90200 REMARK 350 BIOMT1 8 0.967281 0.253707 0.000000 0.00000 REMARK 350 BIOMT2 8 -0.253707 0.967281 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 -24.46300 REMARK 350 BIOMT1 9 0.991797 -0.127826 0.000000 0.00000 REMARK 350 BIOMT2 9 0.127826 0.991797 0.000000 0.00000 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 -23.02400 REMARK 350 BIOMT1 10 0.871342 -0.490676 0.000000 0.00000 REMARK 350 BIOMT2 10 0.490676 0.871342 0.000000 0.00000 REMARK 350 BIOMT3 10 0.000000 0.000000 1.000000 -21.58500 REMARK 350 BIOMT1 11 0.623525 -0.781803 0.000000 0.00000 REMARK 350 BIOMT2 11 0.781803 0.623525 0.000000 0.00000 REMARK 350 BIOMT3 11 0.000000 0.000000 1.000000 -20.14600 REMARK 350 BIOMT1 12 0.284568 -0.958656 0.000000 0.00000 REMARK 350 BIOMT2 12 0.958656 0.284568 0.000000 0.00000 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 -18.70700 REMARK 350 BIOMT1 13 -0.095985 -0.995383 0.000000 0.00000 REMARK 350 BIOMT2 13 0.995383 -0.095985 0.000000 0.00000 REMARK 350 BIOMT3 13 0.000000 0.000000 1.000000 -17.26800 REMARK 350 BIOMT1 14 -0.462507 -0.886616 0.000000 0.00000 REMARK 350 BIOMT2 14 0.886616 -0.462507 0.000000 0.00000 REMARK 350 BIOMT3 14 0.000000 0.000000 1.000000 -15.82900 REMARK 350 BIOMT1 15 -0.761425 -0.648253 0.000000 0.00000 REMARK 350 BIOMT2 15 0.648253 -0.761425 0.000000 0.00000 REMARK 350 BIOMT3 15 0.000000 0.000000 1.000000 -14.39000 REMARK 350 BIOMT1 16 -0.949047 -0.315136 0.000000 0.00000 REMARK 350 BIOMT2 16 0.315136 -0.949047 0.000000 0.00000 REMARK 350 BIOMT3 16 0.000000 0.000000 1.000000 -12.95100 REMARK 350 BIOMT1 17 -0.997947 0.064045 0.000000 0.00000 REMARK 350 BIOMT2 17 -0.064045 -0.997947 0.000000 0.00000 REMARK 350 BIOMT3 17 0.000000 0.000000 1.000000 -11.51200 REMARK 350 BIOMT1 18 -0.900979 0.433864 0.000000 0.00000 REMARK 350 BIOMT2 18 -0.433864 -0.900979 0.000000 0.00000 REMARK 350 BIOMT3 18 0.000000 0.000000 1.000000 -10.07300 REMARK 350 BIOMT1 19 -0.672315 0.740265 0.000000 0.00000 REMARK 350 BIOMT2 19 -0.740265 -0.672315 0.000000 0.00000 REMARK 350 BIOMT3 19 0.000000 0.000000 1.000000 -8.63400 REMARK 350 BIOMT1 20 -0.345380 0.938463 0.000000 0.00000 REMARK 350 BIOMT2 20 -0.938463 -0.345380 0.000000 0.00000 REMARK 350 BIOMT3 20 0.000000 0.000000 1.000000 -7.19500 REMARK 350 BIOMT1 21 0.032039 0.999487 0.000000 0.00000 REMARK 350 BIOMT2 21 -0.999487 0.032039 0.000000 0.00000 REMARK 350 BIOMT3 21 0.000000 0.000000 1.000000 -5.75600 REMARK 350 BIOMT1 22 0.404775 0.914417 0.000000 0.00000 REMARK 350 BIOMT2 22 -0.914417 0.404775 0.000000 0.00000 REMARK 350 BIOMT3 22 0.000000 0.000000 1.000000 -4.31700 REMARK 350 BIOMT1 23 0.718345 0.695687 0.000000 0.00000 REMARK 350 BIOMT2 23 -0.695687 0.718345 0.000000 0.00000 REMARK 350 BIOMT3 23 0.000000 0.000000 1.000000 -2.87800 REMARK 350 BIOMT1 24 0.926916 0.375270 0.000000 0.00000 REMARK 350 BIOMT2 24 -0.375270 0.926916 0.000000 0.00000 REMARK 350 BIOMT3 24 0.000000 0.000000 1.000000 -1.43900 REMARK 350 BIOMT1 25 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 25 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 25 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 26 0.926916 -0.375270 0.000000 0.00000 REMARK 350 BIOMT2 26 0.375270 0.926916 0.000000 0.00000 REMARK 350 BIOMT3 26 0.000000 0.000000 1.000000 1.43900 REMARK 350 BIOMT1 27 0.718345 -0.695687 0.000000 0.00000 REMARK 350 BIOMT2 27 0.695687 0.718345 0.000000 0.00000 REMARK 350 BIOMT3 27 0.000000 0.000000 1.000000 2.87800 REMARK 350 BIOMT1 28 0.404775 -0.914417 0.000000 0.00000 REMARK 350 BIOMT2 28 0.914417 0.404775 0.000000 0.00000 REMARK 350 BIOMT3 28 0.000000 0.000000 1.000000 4.31700 REMARK 350 BIOMT1 29 0.032039 -0.999487 0.000000 0.00000 REMARK 350 BIOMT2 29 0.999487 0.032039 0.000000 0.00000 REMARK 350 BIOMT3 29 0.000000 0.000000 1.000000 5.75600 REMARK 350 BIOMT1 30 -0.345380 -0.938463 0.000000 0.00000 REMARK 350 BIOMT2 30 0.938463 -0.345380 0.000000 0.00000 REMARK 350 BIOMT3 30 0.000000 0.000000 1.000000 7.19500 REMARK 350 BIOMT1 31 -0.672315 -0.740265 0.000000 0.00000 REMARK 350 BIOMT2 31 0.740265 -0.672315 0.000000 0.00000 REMARK 350 BIOMT3 31 0.000000 0.000000 1.000000 8.63400 REMARK 350 BIOMT1 32 -0.900979 -0.433864 0.000000 0.00000 REMARK 350 BIOMT2 32 0.433864 -0.900979 0.000000 0.00000 REMARK 350 BIOMT3 32 0.000000 0.000000 1.000000 10.07300 REMARK 350 BIOMT1 33 -0.997947 -0.064045 0.000000 0.00000 REMARK 350 BIOMT2 33 0.064045 -0.997947 0.000000 0.00000 REMARK 350 BIOMT3 33 0.000000 0.000000 1.000000 11.51200 REMARK 350 BIOMT1 34 -0.949047 0.315136 0.000000 0.00000 REMARK 350 BIOMT2 34 -0.315136 -0.949047 0.000000 0.00000 REMARK 350 BIOMT3 34 0.000000 0.000000 1.000000 12.95100 REMARK 350 BIOMT1 35 -0.761425 0.648253 0.000000 0.00000 REMARK 350 BIOMT2 35 -0.648253 -0.761425 0.000000 0.00000 REMARK 350 BIOMT3 35 0.000000 0.000000 1.000000 14.39000 REMARK 350 BIOMT1 36 -0.462507 0.886616 0.000000 0.00000 REMARK 350 BIOMT2 36 -0.886616 -0.462507 0.000000 0.00000 REMARK 350 BIOMT3 36 0.000000 0.000000 1.000000 15.82900 REMARK 350 BIOMT1 37 -0.095985 0.995383 0.000000 0.00000 REMARK 350 BIOMT2 37 -0.995383 -0.095985 0.000000 0.00000 REMARK 350 BIOMT3 37 0.000000 0.000000 1.000000 17.26800 REMARK 350 BIOMT1 38 0.284568 0.958656 0.000000 0.00000 REMARK 350 BIOMT2 38 -0.958656 0.284568 0.000000 0.00000 REMARK 350 BIOMT3 38 0.000000 0.000000 1.000000 18.70700 REMARK 350 BIOMT1 39 0.623525 0.781803 0.000000 0.00000 REMARK 350 BIOMT2 39 -0.781803 0.623525 0.000000 0.00000 REMARK 350 BIOMT3 39 0.000000 0.000000 1.000000 20.14600 REMARK 350 BIOMT1 40 0.871342 0.490676 0.000000 0.00000 REMARK 350 BIOMT2 40 -0.490676 0.871342 0.000000 0.00000 REMARK 350 BIOMT3 40 0.000000 0.000000 1.000000 21.58500 REMARK 350 BIOMT1 41 0.991797 0.127826 0.000000 0.00000 REMARK 350 BIOMT2 41 -0.127826 0.991797 0.000000 0.00000 REMARK 350 BIOMT3 41 0.000000 0.000000 1.000000 23.02400 REMARK 350 BIOMT1 42 0.967281 -0.253707 0.000000 0.00000 REMARK 350 BIOMT2 42 0.253707 0.967281 0.000000 0.00000 REMARK 350 BIOMT3 42 0.000000 0.000000 1.000000 24.46300 REMARK 350 BIOMT1 43 0.801379 -0.598157 0.000000 0.00000 REMARK 350 BIOMT2 43 0.598157 0.801379 0.000000 0.00000 REMARK 350 BIOMT3 43 0.000000 0.000000 1.000000 25.90200 REMARK 350 BIOMT1 44 0.518340 -0.855174 0.000000 0.00000 REMARK 350 BIOMT2 44 0.855174 0.518340 0.000000 0.00000 REMARK 350 BIOMT3 44 0.000000 0.000000 1.000000 27.34100 REMARK 350 BIOMT1 45 0.159537 -0.987192 0.000000 0.00000 REMARK 350 BIOMT2 45 0.987192 0.159537 0.000000 0.00000 REMARK 350 BIOMT3 45 0.000000 0.000000 1.000000 28.78000 REMARK 350 BIOMT1 46 -0.222587 -0.974913 0.000000 0.00000 REMARK 350 BIOMT2 46 0.974913 -0.222587 0.000000 0.00000 REMARK 350 BIOMT3 46 0.000000 0.000000 1.000000 30.21900 REMARK 350 BIOMT1 47 -0.572175 -0.820132 0.000000 0.00000 REMARK 350 BIOMT2 47 0.820132 -0.572175 0.000000 0.00000 REMARK 350 BIOMT3 47 0.000000 0.000000 1.000000 31.65800 REMARK 350 BIOMT1 48 -0.838128 -0.545473 0.000000 0.00000 REMARK 350 BIOMT2 48 0.545473 -0.838128 0.000000 0.00000 REMARK 350 BIOMT3 48 0.000000 0.000000 1.000000 33.09700 REMARK 350 BIOMT1 49 -0.981574 -0.191083 0.000000 0.00000 REMARK 350 BIOMT2 49 0.191083 -0.981574 0.000000 0.00000 REMARK 350 BIOMT3 49 0.000000 0.000000 1.000000 34.53600 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 H3 PRO P 1 O ALA P 153 1.59 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 A R 2 O5' - P - OP1 ANGL. DEV. = -6.8 DEGREES REMARK 500 A R 3 N9 - C1' - C2' ANGL. DEV. = -8.4 DEGREES REMARK 500 PRO P 63 C - N - CA ANGL. DEV. = 16.1 DEGREES REMARK 500 PRO P 63 C - N - CD ANGL. DEV. = -14.0 DEGREES REMARK 500 LEU P 64 CA - CB - CG ANGL. DEV. = 18.9 DEGREES REMARK 500 LEU P 65 CA - CB - CG ANGL. DEV. = 16.7 DEGREES REMARK 500 LEU P 108 CA - CB - CG ANGL. DEV. = 15.6 DEGREES REMARK 500 LEU P 132 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 GLY P 135 N - CA - C ANGL. DEV. = 16.5 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 LEU P 5 -98.99 -2.01 REMARK 500 PRO P 7 -13.70 -33.23 REMARK 500 ASN P 9 -36.32 158.08 REMARK 500 LEU P 10 32.31 -72.63 REMARK 500 ILE P 11 -89.42 -130.92 REMARK 500 THR P 13 -36.01 -171.18 REMARK 500 ALA P 18 -83.02 164.38 REMARK 500 PRO P 19 -148.11 -114.50 REMARK 500 TYR P 20 -90.21 -138.96 REMARK 500 VAL P 22 -99.19 -56.51 REMARK 500 LEU P 24 -75.80 -41.39 REMARK 500 ILE P 26 21.03 -63.84 REMARK 500 SER P 32 27.90 -75.36 REMARK 500 ASN P 33 -112.84 -152.98 REMARK 500 GLN P 38 -5.29 -53.07 REMARK 500 ALA P 39 -85.14 -77.20 REMARK 500 ARG P 45 -79.47 -9.44 REMARK 500 SER P 51 32.78 -141.15 REMARK 500 LEU P 52 78.72 -162.43 REMARK 500 ILE P 54 78.13 -45.60 REMARK 500 ALA P 56 23.55 45.68 REMARK 500 ASN P 57 -169.79 -54.12 REMARK 500 THR P 60 -119.62 175.09 REMARK 500 ARG P 61 178.75 166.99 REMARK 500 PRO P 63 116.82 -28.04 REMARK 500 LEU P 64 -93.13 -47.78 REMARK 500 LEU P 65 33.95 -84.20 REMARK 500 VAL P 71 -79.16 -90.94 REMARK 500 ARG P 72 107.66 -50.35 REMARK 500 THR P 75 -70.11 -102.99 REMARK 500 ALA P 77 -71.82 -27.20 REMARK 500 PRO P 78 7.28 -61.43 REMARK 500 PHE P 80 -73.74 -57.84 REMARK 500 LEU P 84 -51.42 -29.83 REMARK 500 ASP P 88 47.00 -157.82 REMARK 500 THR P 89 -9.07 -141.93 REMARK 500 LYS P 90 49.56 -65.93 REMARK 500 ASN P 91 -169.50 84.31 REMARK 500 ARG P 92 -10.51 -171.82 REMARK 500 GLU P 95 85.50 -58.85 REMARK 500 VAL P 96 -168.66 -119.75 REMARK 500 GLU P 97 -117.57 167.19 REMARK 500 THR P 103 29.16 -65.38 REMARK 500 THR P 107 70.96 169.27 REMARK 500 LEU P 108 -91.59 -160.10 REMARK 500 THR P 111 -52.41 5.21 REMARK 500 ALA P 120 -7.45 -53.39 REMARK 500 LYS P 123 -89.03 -58.63 REMARK 500 GLU P 124 -8.90 -38.06 REMARK 500 ALA P 137 -54.30 89.50 REMARK 500 REMARK 500 THIS ENTRY HAS 62 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 A R 3 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 3PDM R 1 3 PDB 3PDM 3PDM 1 3 DBREF 3PDM P 1 162 UNP Q8BE68 Q8BE68_9VIRU 2 163 SEQRES 1 R 3 G A A SEQRES 1 P 162 PRO TYR LEU ASN LEU THR PRO LEU ASN LEU ILE TYR THR SEQRES 2 P 162 SER GLY THR PHE ALA PRO TYR ASP VAL PHE LEU GLU ILE SEQRES 3 P 162 LEU VAL LYS SER ARG SER ASN SER PHE GLN THR GLN ALA SEQRES 4 P 162 GLY ARG ASP THR LEU ARG GLU GLN LEU ILE ASN SER LEU SEQRES 5 P 162 GLN ILE VAL ALA ASN LEU ASN THR ARG TYR PRO LEU LEU SEQRES 6 P 162 GLY PHE TYR VAL TRP VAL ARG ASN PRO THR LEU ALA PRO SEQRES 7 P 162 VAL PHE GLU ALA LEU LEU ARG ALA THR ASP THR LYS ASN SEQRES 8 P 162 ARG ILE ILE GLU VAL GLU GLU GLU SER ARG PRO THR THR SEQRES 9 P 162 ALA GLU THR LEU ASN ALA THR GLN ARG VAL ASP ASP ALA SEQRES 10 P 162 THR VAL ALA ILE HIS LYS GLU ILE ASP ASN ILE LEU LEU SEQRES 11 P 162 LEU LEU GLN GLY GLY THR ALA VAL TYR ASP ARG THR ALA SEQRES 12 P 162 PHE GLU VAL ALA SER GLY LEU SER TRP ALA ASP PRO THR SEQRES 13 P 162 THR THR SER THR THR THR HELIX 1 1 TYR P 20 LYS P 29 1 10 HELIX 2 2 ALA P 39 ASN P 50 1 12 HELIX 3 3 LEU P 76 ARG P 85 1 10 HELIX 4 4 PRO P 102 GLU P 106 5 5 HELIX 5 5 THR P 111 THR P 118 1 8 HELIX 6 6 VAL P 119 LEU P 132 1 14 HELIX 7 7 ARG P 141 GLY P 149 1 9 HELIX 8 8 THR P 156 THR P 161 1 6 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000