PDB Short entry for 2TMV HEADER VIRUS/RNA 15-SEP-88 2TMV TITLE VISUALIZATION OF PROTEIN-NUCLEIC ACID INTERACTIONS IN A VIRUS. REFINED TITLE 2 STRUCTURE OF INTACT TOBACCO MOSAIC VIRUS AT 2.9 ANGSTROMS RESOLUTION TITLE 3 BY X-RAY FIBER DIFFRACTION 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: TMV COAT PROTEIN; COMPND 7 CHAIN: P; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: TOBACCO MOSAIC VIRUS; SOURCE 5 ORGANISM_TAXID: 12243; SOURCE 6 STRAIN: VULGARE KEYWDS VIRUS, HELICAL VIRUS, VIRUS-RNA COMPLEX EXPDTA FIBER DIFFRACTION AUTHOR G.STUBBS,R.PATTANAYEK,K.NAMBA REVDAT 9 21-FEB-24 2TMV 1 REMARK LINK REVDAT 8 29-NOV-17 2TMV 1 HELIX REVDAT 7 25-AUG-09 2TMV 1 SOURCE REVDAT 6 24-FEB-09 2TMV 1 VERSN REVDAT 5 01-APR-03 2TMV 1 JRNL REVDAT 4 31-JUL-94 2TMV 3 EXPDTA REMARK FTNOTE CRYST1 REVDAT 3 15-JAN-91 2TMV 1 REMARK REVDAT 2 15-OCT-89 2TMV 1 JRNL REVDAT 1 09-JAN-89 2TMV 0 JRNL AUTH K.NAMBA,R.PATTANAYEK,G.STUBBS JRNL TITL VISUALIZATION OF PROTEIN-NUCLEIC ACID INTERACTIONS IN A JRNL TITL 2 VIRUS. REFINED STRUCTURE OF INTACT TOBACCO MOSAIC VIRUS AT JRNL TITL 3 2.9 A RESOLUTION BY X-RAY FIBER DIFFRACTION. JRNL REF J.MOL.BIOL. V. 208 307 1989 JRNL REFN ISSN 0022-2836 JRNL PMID 2769760 JRNL DOI 10.1016/0022-2836(89)90391-4 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.NAMBA,G.STUBBS REMARK 1 TITL STRUCTURE OF TOBACCO MOSAIC VIRUS AT 3.6 ANGSTROMS REMARK 1 TITL 2 RESOLUTION. IMPLICATIONS FOR ASSEMBLY REMARK 1 REF SCIENCE V. 231 1401 1986 REMARK 1 REFN ISSN 0036-8075 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.STUBBS,K.NAMBA,L.MAKOWSKI REMARK 1 TITL APPLICATION OF RESTRAINED LEAST-SQUARES REFINEMENT TO FIBER REMARK 1 TITL 2 DIFFRACTION FROM MACROMOLECULAR ASSEMBLIES REMARK 1 REF BIOPHYS.J. V. 49 58 1986 REMARK 1 REFN ISSN 0006-3495 REMARK 1 REFERENCE 3 REMARK 1 AUTH K.NAMBA,G.STUBBS REMARK 1 TITL SOLVING THE PHASE PROBLEM IN FIBER DIFFRACTION. APPLICATION REMARK 1 TITL 2 TO TOBACCO MOSAIC VIRUS AT 3.6 ANGSTROMS RESOLUTION REMARK 1 REF ACTA CRYSTALLOGR.,SECT.A V. 41 252 1985 REMARK 1 REFN ISSN 0108-7673 REMARK 1 REFERENCE 4 REMARK 1 AUTH G.STUBBS,C.STAUFFACHER REMARK 1 TITL STRUCTURE OF THE RNA IN TOBACCO MOSAIC VIRUS REMARK 1 REF J.MOL.BIOL. V. 152 387 1981 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 5 REMARK 1 AUTH G.STUBBS,S.WARREN,K.HOLMES REMARK 1 TITL STRUCTURE OF RNA AND RNA BINDING SITE IN TOBACCO MOSAIC REMARK 1 TITL 2 VIRUS FROM 4-ANGSTROMS MAP CALCULATED FROM X-RAY FIBRE REMARK 1 TITL 3 DIAGRAMS REMARK 1 REF NATURE V. 267 216 1977 REMARK 1 REFN ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON 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)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.096 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1212 REMARK 3 NUCLEIC ACID ATOMS : 67 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 74 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.011 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.046 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.044 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.009 ; 0.020 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.135 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.229 ; 0.500 REMARK 3 MULTIPLE TORSION (A) : 0.406 ; 0.500 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : 0.288 ; 0.500 REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 1.900 ; 3.000 REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.580 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.061 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 0.305 ; 1.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 0.728 ; 1.500 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURE WAS DETERMINED BY FIBER DIFFRACTION USING REMARK 3 MULTI-DIMENSIONAL ISOMORPHOUS REPLACEMENT WITH LAYER-LINE REMARK 3 SPLITTING, SOLVENT FLATTENING REFINEMENT AND RESTRAINED REMARK 3 LEAST SQUARES COORDINATE REFINEMENT. THE STRUCTURE REMARK 3 INCLUDES 154 OF THE 158 AMINO ACIDS AND THREE RNA REMARK 3 NUCLEOTIDES MODELLED AS GAA BUT REPRESENTING THE ENTIRE REMARK 3 NUCLEIC ACID CONTENT. REMARK 4 REMARK 4 2TMV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000178687. 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 : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 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: TMV 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 2130 IDENTICAL PROTEIN SUBUNITS REMARK 300 OF MOLECULAR WEIGHT 17500 FORM A RIGHT-HANDED HELIX OF REMARK 300 PITCH 23 ANGSTROMS AND LENGTH 69 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) = 69.00/49 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 -0.981559 0.191159 0.000000 0.00000 REMARK 350 BIOMT2 1 -0.191159 -0.981559 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 -33.79592 REMARK 350 BIOMT1 2 -0.838088 0.545535 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.545535 -0.838088 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -32.38776 REMARK 350 BIOMT1 3 -0.572117 0.820172 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.820172 -0.572117 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 -30.97959 REMARK 350 BIOMT1 4 -0.222521 0.974928 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.974928 -0.222521 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 -29.57143 REMARK 350 BIOMT1 5 0.159600 0.987182 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.987182 0.159600 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 -28.16327 REMARK 350 BIOMT1 6 0.518393 0.855143 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.855143 0.518393 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 -26.75510 REMARK 350 BIOMT1 7 0.801414 0.598111 0.000000 0.00000 REMARK 350 BIOMT2 7 -0.598111 0.801414 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 -25.34694 REMARK 350 BIOMT1 8 0.967295 0.253655 0.000000 0.00000 REMARK 350 BIOMT2 8 -0.253655 0.967295 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 -23.93878 REMARK 350 BIOMT1 9 0.991790 -0.127877 0.000000 0.00000 REMARK 350 BIOMT2 9 0.127877 0.991790 0.000000 0.00000 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 -22.53061 REMARK 350 BIOMT1 10 0.871319 -0.490718 0.000000 0.00000 REMARK 350 BIOMT2 10 0.490718 0.871319 0.000000 0.00000 REMARK 350 BIOMT3 10 0.000000 0.000000 1.000000 -21.12245 REMARK 350 BIOMT1 11 0.623490 -0.781831 0.000000 0.00000 REMARK 350 BIOMT2 11 0.781831 0.623490 0.000000 0.00000 REMARK 350 BIOMT3 11 0.000000 0.000000 1.000000 -19.71429 REMARK 350 BIOMT1 12 0.284528 -0.958668 0.000000 0.00000 REMARK 350 BIOMT2 12 0.958668 0.284528 0.000000 0.00000 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 -18.30612 REMARK 350 BIOMT1 13 -0.096023 -0.995379 0.000000 0.00000 REMARK 350 BIOMT2 13 0.995379 -0.096023 0.000000 0.00000 REMARK 350 BIOMT3 13 0.000000 0.000000 1.000000 -16.89796 REMARK 350 BIOMT1 14 -0.462538 -0.886599 0.000000 0.00000 REMARK 350 BIOMT2 14 0.886599 -0.462538 0.000000 0.00000 REMARK 350 BIOMT3 14 0.000000 0.000000 1.000000 -15.48980 REMARK 350 BIOMT1 15 -0.761446 -0.648228 0.000000 0.00000 REMARK 350 BIOMT2 15 0.648228 -0.761446 0.000000 0.00000 REMARK 350 BIOMT3 15 0.000000 0.000000 1.000000 -14.08163 REMARK 350 BIOMT1 16 -0.949056 -0.315108 0.000000 0.00000 REMARK 350 BIOMT2 16 0.315108 -0.949056 0.000000 0.00000 REMARK 350 BIOMT3 16 0.000000 0.000000 1.000000 -12.67347 REMARK 350 BIOMT1 17 -0.997945 0.064070 0.000000 0.00000 REMARK 350 BIOMT2 17 -0.064070 -0.997945 0.000000 0.00000 REMARK 350 BIOMT3 17 0.000000 0.000000 1.000000 -11.26531 REMARK 350 BIOMT1 18 -0.900969 0.433884 0.000000 0.00000 REMARK 350 BIOMT2 18 -0.433884 -0.900969 0.000000 0.00000 REMARK 350 BIOMT3 18 0.000000 0.000000 1.000000 -9.85714 REMARK 350 BIOMT1 19 -0.672301 0.740278 0.000000 0.00000 REMARK 350 BIOMT2 19 -0.740278 -0.672301 0.000000 0.00000 REMARK 350 BIOMT3 19 0.000000 0.000000 1.000000 -8.44898 REMARK 350 BIOMT1 20 -0.345365 0.938468 0.000000 0.00000 REMARK 350 BIOMT2 20 -0.938468 -0.345365 0.000000 0.00000 REMARK 350 BIOMT3 20 0.000000 0.000000 1.000000 -7.04082 REMARK 350 BIOMT1 21 0.032052 0.999486 0.000000 0.00000 REMARK 350 BIOMT2 21 -0.999486 0.032052 0.000000 0.00000 REMARK 350 BIOMT3 21 0.000000 0.000000 1.000000 -5.63265 REMARK 350 BIOMT1 22 0.404783 0.914413 0.000000 0.00000 REMARK 350 BIOMT2 22 -0.914413 0.404783 0.000000 0.00000 REMARK 350 BIOMT3 22 0.000000 0.000000 1.000000 -4.22449 REMARK 350 BIOMT1 23 0.718349 0.695683 0.000000 0.00000 REMARK 350 BIOMT2 23 -0.695683 0.718349 0.000000 0.00000 REMARK 350 BIOMT3 23 0.000000 0.000000 1.000000 -2.81633 REMARK 350 BIOMT1 24 0.926917 0.375267 0.000000 0.00000 REMARK 350 BIOMT2 24 -0.375267 0.926917 0.000000 0.00000 REMARK 350 BIOMT3 24 0.000000 0.000000 1.000000 -1.40816 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 0.926917 -0.375267 0.000000 0.00000 REMARK 350 BIOMT2 26 0.375267 0.926917 0.000000 0.00000 REMARK 350 BIOMT3 26 0.000000 0.000000 1.000000 1.40816 REMARK 350 BIOMT1 27 0.718349 -0.695683 0.000000 0.00000 REMARK 350 BIOMT2 27 0.695683 0.718349 0.000000 0.00000 REMARK 350 BIOMT3 27 0.000000 0.000000 1.000000 2.81633 REMARK 350 BIOMT1 28 0.404783 -0.914413 0.000000 0.00000 REMARK 350 BIOMT2 28 0.914413 0.404783 0.000000 0.00000 REMARK 350 BIOMT3 28 0.000000 0.000000 1.000000 4.22449 REMARK 350 BIOMT1 29 0.032052 -0.999486 0.000000 0.00000 REMARK 350 BIOMT2 29 0.999486 0.032052 0.000000 0.00000 REMARK 350 BIOMT3 29 0.000000 0.000000 1.000000 5.63265 REMARK 350 BIOMT1 30 -0.345365 -0.938468 0.000000 0.00000 REMARK 350 BIOMT2 30 0.938468 -0.345365 0.000000 0.00000 REMARK 350 BIOMT3 30 0.000000 0.000000 1.000000 7.04082 REMARK 350 BIOMT1 31 -0.672301 -0.740278 0.000000 0.00000 REMARK 350 BIOMT2 31 0.740278 -0.672301 0.000000 0.00000 REMARK 350 BIOMT3 31 0.000000 0.000000 1.000000 8.44898 REMARK 350 BIOMT1 32 -0.900969 -0.433884 0.000000 0.00000 REMARK 350 BIOMT2 32 0.433884 -0.900969 0.000000 0.00000 REMARK 350 BIOMT3 32 0.000000 0.000000 1.000000 9.85714 REMARK 350 BIOMT1 33 -0.997945 -0.064070 0.000000 0.00000 REMARK 350 BIOMT2 33 0.064070 -0.997945 0.000000 0.00000 REMARK 350 BIOMT3 33 0.000000 0.000000 1.000000 11.26531 REMARK 350 BIOMT1 34 -0.949056 0.315108 0.000000 0.00000 REMARK 350 BIOMT2 34 -0.315108 -0.949056 0.000000 0.00000 REMARK 350 BIOMT3 34 0.000000 0.000000 1.000000 12.67347 REMARK 350 BIOMT1 35 -0.761446 0.648228 0.000000 0.00000 REMARK 350 BIOMT2 35 -0.648228 -0.761446 0.000000 0.00000 REMARK 350 BIOMT3 35 0.000000 0.000000 1.000000 14.08163 REMARK 350 BIOMT1 36 -0.462538 0.886599 0.000000 0.00000 REMARK 350 BIOMT2 36 -0.886599 -0.462538 0.000000 0.00000 REMARK 350 BIOMT3 36 0.000000 0.000000 1.000000 15.48980 REMARK 350 BIOMT1 37 -0.096023 0.995379 0.000000 0.00000 REMARK 350 BIOMT2 37 -0.995379 -0.096023 0.000000 0.00000 REMARK 350 BIOMT3 37 0.000000 0.000000 1.000000 16.89796 REMARK 350 BIOMT1 38 0.284528 0.958668 0.000000 0.00000 REMARK 350 BIOMT2 38 -0.958668 0.284528 0.000000 0.00000 REMARK 350 BIOMT3 38 0.000000 0.000000 1.000000 18.30612 REMARK 350 BIOMT1 39 0.623490 0.781831 0.000000 0.00000 REMARK 350 BIOMT2 39 -0.781831 0.623490 0.000000 0.00000 REMARK 350 BIOMT3 39 0.000000 0.000000 1.000000 19.71429 REMARK 350 BIOMT1 40 0.871319 0.490718 0.000000 0.00000 REMARK 350 BIOMT2 40 -0.490718 0.871319 0.000000 0.00000 REMARK 350 BIOMT3 40 0.000000 0.000000 1.000000 21.12245 REMARK 350 BIOMT1 41 0.991790 0.127877 0.000000 0.00000 REMARK 350 BIOMT2 41 -0.127877 0.991790 0.000000 0.00000 REMARK 350 BIOMT3 41 0.000000 0.000000 1.000000 22.53061 REMARK 350 BIOMT1 42 0.967295 -0.253655 0.000000 0.00000 REMARK 350 BIOMT2 42 0.253655 0.967295 0.000000 0.00000 REMARK 350 BIOMT3 42 0.000000 0.000000 1.000000 23.93878 REMARK 350 BIOMT1 43 0.801414 -0.598111 0.000000 0.00000 REMARK 350 BIOMT2 43 0.598111 0.801414 0.000000 0.00000 REMARK 350 BIOMT3 43 0.000000 0.000000 1.000000 25.34694 REMARK 350 BIOMT1 44 0.518393 -0.855143 0.000000 0.00000 REMARK 350 BIOMT2 44 0.855143 0.518393 0.000000 0.00000 REMARK 350 BIOMT3 44 0.000000 0.000000 1.000000 26.75510 REMARK 350 BIOMT1 45 0.159600 -0.987182 0.000000 0.00000 REMARK 350 BIOMT2 45 0.987182 0.159600 0.000000 0.00000 REMARK 350 BIOMT3 45 0.000000 0.000000 1.000000 28.16327 REMARK 350 BIOMT1 46 -0.222521 -0.974928 0.000000 0.00000 REMARK 350 BIOMT2 46 0.974928 -0.222521 0.000000 0.00000 REMARK 350 BIOMT3 46 0.000000 0.000000 1.000000 29.57143 REMARK 350 BIOMT1 47 -0.572117 -0.820172 0.000000 0.00000 REMARK 350 BIOMT2 47 0.820172 -0.572117 0.000000 0.00000 REMARK 350 BIOMT3 47 0.000000 0.000000 1.000000 30.97959 REMARK 350 BIOMT1 48 -0.838088 -0.545535 0.000000 0.00000 REMARK 350 BIOMT2 48 0.545535 -0.838088 0.000000 0.00000 REMARK 350 BIOMT3 48 0.000000 0.000000 1.000000 32.38776 REMARK 350 BIOMT1 49 -0.981559 -0.191159 0.000000 0.00000 REMARK 350 BIOMT2 49 0.191159 -0.981559 0.000000 0.00000 REMARK 350 BIOMT3 49 0.000000 0.000000 1.000000 33.79592 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 GLY P 155 REMARK 465 PRO P 156 REMARK 465 ALA P 157 REMARK 465 THR P 158 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 G R 1 C5 - C6 - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 G R 1 C3' - O3' - P ANGL. DEV. = 16.1 DEGREES REMARK 500 A R 2 P - O5' - C5' ANGL. DEV. = -11.7 DEGREES REMARK 500 A R 2 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 A R 2 N1 - C2 - N3 ANGL. DEV. = -3.7 DEGREES REMARK 500 A R 2 C3' - O3' - P ANGL. DEV. = 14.3 DEGREES REMARK 500 A R 3 N1 - C2 - N3 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP P 19 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 CYS P 27 CA - CB - SG ANGL. DEV. = 8.0 DEGREES REMARK 500 GLN P 36 CB - CA - C ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG P 41 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG P 41 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 THR P 42 N - CA - CB ANGL. DEV. = 12.0 DEGREES REMARK 500 ARG P 46 NE - CZ - NH1 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG P 46 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 GLN P 47 N - CA - CB ANGL. DEV. = 12.0 DEGREES REMARK 500 ASP P 64 CB - CG - OD1 ANGL. DEV. = 7.6 DEGREES REMARK 500 ASP P 66 CB - CG - OD1 ANGL. DEV. = 10.1 DEGREES REMARK 500 PHE P 67 CB - CA - C ANGL. DEV. = 12.6 DEGREES REMARK 500 PHE P 67 CA - CB - CG ANGL. DEV. = 18.2 DEGREES REMARK 500 ARG P 71 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG P 90 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASN P 91 N - CA - CB ANGL. DEV. = 13.6 DEGREES REMARK 500 ARG P 92 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG P 113 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG P 134 CD - NE - CZ ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG P 134 NE - CZ - NH1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG P 134 NE - CZ - NH2 ANGL. DEV. = -7.6 DEGREES REMARK 500 SER P 138 N - CA - C ANGL. DEV. = -18.2 DEGREES REMARK 500 ARG P 141 CD - NE - CZ ANGL. DEV. = -9.0 DEGREES REMARK 500 TRP P 152 CA - CB - CG ANGL. DEV. = 17.6 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 SER P 8 46.29 -72.90 REMARK 500 SER P 15 58.53 -93.32 REMARK 500 LEU P 31 -10.00 -54.68 REMARK 500 ASN P 33 -161.86 -165.02 REMARK 500 GLN P 39 -70.51 -69.92 REMARK 500 SER P 49 -72.97 -71.57 REMARK 500 SER P 55 -72.40 -120.27 REMARK 500 SER P 65 20.80 -77.60 REMARK 500 ALA P 74 -22.35 -38.99 REMARK 500 ASP P 77 -77.85 -32.75 REMARK 500 ALA P 82 -34.29 -37.27 REMARK 500 ARG P 90 -53.47 -152.30 REMARK 500 ASN P 91 -67.14 -169.67 REMARK 500 ARG P 92 88.09 58.36 REMARK 500 ILE P 93 73.71 -170.84 REMARK 500 ALA P 100 -164.76 -172.95 REMARK 500 PRO P 102 -70.36 -66.68 REMARK 500 THR P 104 -75.87 -27.59 REMARK 500 GLU P 106 -73.51 -65.99 REMARK 500 LEU P 108 -77.29 -64.50 REMARK 500 ASP P 109 -157.68 -100.37 REMARK 500 ILE P 121 -83.50 -53.48 REMARK 500 ILE P 125 -72.61 -62.25 REMARK 500 SER P 143 -71.70 -90.44 REMARK 500 SER P 147 -60.59 -106.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 WATER MOLECULE 45 OCCUPIES A SITE BELIEVED TO BIND CALCIUM REMARK 600 AT HIGHER CALCIUM CONCENTRATIONS. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA R 4 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G R 1 O2' REMARK 620 2 A R 2 OP1 65.2 REMARK 620 3 A R 2 OP2 79.1 66.5 REMARK 620 4 A R 3 O4' 158.4 111.3 120.1 REMARK 620 5 HOH R 11 O 77.2 116.1 56.6 120.5 REMARK 620 6 HOH R 35 O 101.1 51.1 107.8 65.2 164.4 REMARK 620 7 ASP P 116 OD1 50.8 70.9 124.3 107.6 120.2 66.9 REMARK 620 8 ASP P 116 OD2 89.2 99.0 164.2 69.9 131.3 63.7 40.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 650 REMARK 650 HELIX REMARK 650 THE ENDS OF ALPHA HELICES ARE OFTEN DIFFICULT TO DEFINE AND REMARK 650 IN SEVERAL CASES INCLUDE ONE TURN OF 3/10 HELIX. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA R 4 REMARK 999 REMARK 999 SEQUENCE REMARK 999 GENERATION OF DIFFERENT SUBUNITS IS MOST EASILY DONE IN REMARK 999 POLAR COORDINATES. ASSUME THAT THE REFERENCE COORDINATES REMARK 999 ARE FROM SUBUNIT NUMBER 0. CONVERT X(0) AND Y(0) TO POLAR REMARK 999 COORDINATES R(0) AND PHI(0). PHI IS IN DEGREES. REMARK 999 SUBUNIT N IS GENERATED BY REMARK 999 R(N) = R(0) REMARK 999 PHI(N) = PHI(0) + (3*360/49)*N REMARK 999 Z(N) = Z(0) + (69/49)*N REMARK 999 THEN CONVERT R(N) AND PHI(N) BACK TO CARTESIAN COORDINATES REMARK 999 X(N) AND Y(N). REMARK 999 REMARK 999 THE LENGTH OF THE BASIC REPEAT UNIT IS 69.0 ANGSTROMS. REMARK 999 THE NUMBER OF SUBUNITS IN THE BASIC REPEAT UNIT IS 49. DBREF 2TMV P 1 158 UNP P03570 COAT_TMV 1 158 DBREF 2TMV R 1 3 PDB 2TMV 2TMV 1 3 SEQRES 1 R 3 G A A SEQRES 1 P 158 SER TYR SER ILE THR THR PRO SER GLN PHE VAL PHE LEU SEQRES 2 P 158 SER SER ALA TRP ALA ASP PRO ILE GLU LEU ILE ASN LEU SEQRES 3 P 158 CYS THR ASN ALA LEU GLY ASN GLN PHE GLN THR GLN GLN SEQRES 4 P 158 ALA ARG THR VAL VAL GLN ARG GLN PHE SER GLU VAL TRP SEQRES 5 P 158 LYS PRO SER PRO GLN VAL THR VAL ARG PHE PRO ASP SER SEQRES 6 P 158 ASP PHE LYS VAL TYR ARG TYR ASN ALA VAL LEU ASP PRO SEQRES 7 P 158 LEU VAL THR ALA LEU LEU GLY ALA PHE ASP THR ARG ASN SEQRES 8 P 158 ARG ILE ILE GLU VAL GLU ASN GLN ALA ASN PRO THR THR SEQRES 9 P 158 ALA GLU THR LEU ASP ALA THR ARG ARG VAL ASP ASP ALA SEQRES 10 P 158 THR VAL ALA ILE ARG SER ALA ILE ASN ASN LEU ILE VAL SEQRES 11 P 158 GLU LEU ILE ARG GLY THR GLY SER TYR ASN ARG SER SER SEQRES 12 P 158 PHE GLU SER SER SER GLY LEU VAL TRP THR SER GLY PRO SEQRES 13 P 158 ALA THR HET CA R 4 1 HETNAM CA CALCIUM ION FORMUL 3 CA CA 2+ FORMUL 4 HOH *74(H2 O) HELIX 1 N GLN P 9 SER P 14 1 6 HELIX 2 LS ASP P 19 ASN P 33 1 15 HELIX 3 RS THR P 37 TRP P 52 1 16 HELIX 4 RR ASN P 73 ALA P 86 1 14 HELIX 5 LR THR P 111 GLY P 135 1 25 HELIX 6 C ASN P 140 SER P 146 1 7 SHEET 1 A 3 TRP P 17 ALA P 18 0 SHEET 2 A 3 LYS P 68 TYR P 70 -1 O VAL P 69 N ALA P 18 SHEET 3 A 3 SER P 138 TYR P 139 -1 N TYR P 139 O LYS P 68 LINK O2' G R 1 CA CA R 4 1555 1555 3.10 LINK OP1 A R 2 CA CA R 4 1555 1555 2.20 LINK OP2 A R 2 CA CA R 4 1555 1555 2.33 LINK O4' A R 3 CA CA R 4 1555 1555 3.08 LINK CA CA R 4 O HOH R 11 1555 1555 2.85 LINK CA CA R 4 O HOH R 35 1555 1555 2.92 LINK CA CA R 4 OD1 ASP P 116 1555 1555 3.30 LINK CA CA R 4 OD2 ASP P 116 1555 1555 2.29 SITE 1 AC1 6 ASP P 116 G R 1 A R 2 A R 3 SITE 2 AC1 6 HOH R 11 HOH R 35 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