HEADER VIRAL PROTEIN 21-FEB-07 2JH8 TITLE THE STRUCTURE OF BLUETONGUE VIRUS VP4 REVEALS A MULTIFUNCTIONAL RNA- TITLE 2 CAPPING PRODUCTION-LINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: VP4 CORE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BLUETONGUE VIRUS VP4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BLUETONGUE VIRUS 10 (ISOLATE USA); SOURCE 3 ORGANISM_TAXID: 10900; SOURCE 4 STRAIN: BTV-10; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS GUANYLYLTRANSFERASE, VIRAL CAPPING ENZYME, CORE PROTEIN, VIRION KEYWDS 2 PROTEIN, METHYLTRANSFERASE, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.SUTTON,J.M.GRIMES,D.I.STUART,P.ROY REVDAT 6 06-MAR-24 2JH8 1 COMPND FORMUL REVDAT 5 16-OCT-19 2JH8 1 SOURCE REVDAT 4 24-FEB-09 2JH8 1 VERSN REVDAT 3 12-JUN-07 2JH8 1 JRNL REVDAT 2 17-APR-07 2JH8 1 JRNL REVDAT 1 10-APR-07 2JH8 0 JRNL AUTH G.SUTTON,J.M.GRIMES,D.I.STUART,P.ROY JRNL TITL BLUETONGUE VIRUS VP4 IS AN RNA-CAPPING ASSEMBLY LINE. JRNL REF NAT.STRUCT.MOL.BIOL. V. 14 449 2007 JRNL REFN ISSN 1545-9993 JRNL PMID 17417654 JRNL DOI 10.1038/NSMB1225 REMARK 2 REMARK 2 RESOLUTION. 3.22 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.22 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 11731 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) : 0.246 REMARK 3 FREE R VALUE : 0.341 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 590 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 : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.22 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.30 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 821 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE : 0.3990 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 39.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 42 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 : 5040 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 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) : 72.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.62000 REMARK 3 B22 (A**2) : 1.62000 REMARK 3 B33 (A**2) : -2.43000 REMARK 3 B12 (A**2) : 0.81000 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) : 0.74 REMARK 3 ESD FROM SIGMAA (A) : 0.78 REMARK 3 LOW RESOLUTION CUTOFF (A) : 25.0 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) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 1.956 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) : 0.537 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 0.942 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.189 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 1.969 ; 4.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : MASK REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 2JH8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1290031535. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.70 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11731 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 18.20 REMARK 200 R MERGE (I) : 0.21000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.00 REMARK 200 R MERGE FOR SHELL (I) : 0.68000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: THIS STRUCTURE IS A LIGAND (7MGDP) SOAK. THE ADOHCY (HIGH REMARK 200 RESOLUTION) AND 7MGDP STRUCTURES WERE ISOMORPHOUS SO THIS REMARK 200 STRUCTURE WAS SOLVED FROM THE ADOHCY - IT DID NOT REQUIR REMARK 200 MOLECULAR REPLACEMENT. VP4-7MGDP CRYSTALS ARE ISOMORPHOUS WITH REMARK 200 VP4-ADOHCY CRYSTALS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM IMIDAZOLE PH 8.0, 2%-8% PROPAN REMARK 280 -2-OL, 0-250 MM NACL, 50 MM DTT, PH 7.70 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 279.88933 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 139.94467 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 209.91700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 69.97233 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 349.86167 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 279.88933 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 139.94467 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 69.97233 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 209.91700 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 349.86167 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 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 400 REMARK 400 COMPOUND REMARK 400 THE VP4 PROTEIN IS ONE OF THE FIVE PROTEINS (WITH VP1, VP3, REMARK 400 VP6 AND VP7) WHICH FORMS THE INNER CAPSID OF THE VIRUS. REMARK 400 VP4 CAPS VIRAL RNA. 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 ARG A 270 REMARK 465 SER A 271 REMARK 465 GLN A 272 REMARK 465 MET A 273 REMARK 465 ASN A 274 REMARK 465 ASP A 275 REMARK 465 HIS A 276 REMARK 465 LEU A 537 REMARK 465 HIS A 538 REMARK 465 GLU A 539 REMARK 465 THR A 540 REMARK 465 ALA A 541 REMARK 465 ASP A 542 REMARK 465 GLU A 543 REMARK 465 LEU A 544 REMARK 465 LYS A 545 REMARK 465 ARG A 546 REMARK 465 MET A 547 REMARK 465 GLY A 548 REMARK 465 LEU A 549 REMARK 465 LYS A 601 REMARK 465 GLU A 602 REMARK 465 GLN A 603 REMARK 465 MET A 604 REMARK 465 ALA A 605 REMARK 465 GLU A 606 REMARK 465 ARG A 607 REMARK 465 PRO A 608 REMARK 465 TRP A 609 REMARK 465 HIS A 610 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 TYR A 163 CG CD1 CD2 CE1 CE2 CZ OH 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 GLU A 92 CD GLU A 92 OE1 0.173 REMARK 500 GLU A 92 CD GLU A 92 OE2 0.100 REMARK 500 CYS A 230 CB CYS A 230 SG 0.116 REMARK 500 SER A 244 CB SER A 244 OG 0.137 REMARK 500 ARG A 592 CZ ARG A 592 NH1 0.148 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 PRO A 327 C - N - CA ANGL. DEV. = 10.2 DEGREES REMARK 500 PRO A 535 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 LEU A 559 CB - CG - CD1 ANGL. DEV. = -12.6 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 GLU A 3 -45.36 -145.62 REMARK 500 GLU A 13 -2.12 -52.38 REMARK 500 LYS A 19 -32.59 -32.36 REMARK 500 THR A 29 92.81 111.20 REMARK 500 ASN A 35 6.89 -69.21 REMARK 500 ASP A 80 -72.85 -56.86 REMARK 500 ILE A 81 -152.52 -158.70 REMARK 500 ALA A 94 -77.67 -66.24 REMARK 500 ARG A 95 -16.52 -173.19 REMARK 500 SER A 96 -111.30 65.20 REMARK 500 HIS A 97 39.71 94.34 REMARK 500 ALA A 137 -39.79 -26.82 REMARK 500 ARG A 146 22.19 -79.28 REMARK 500 LEU A 147 -68.66 -146.72 REMARK 500 MET A 161 -132.15 -165.81 REMARK 500 TYR A 163 98.22 131.01 REMARK 500 ALA A 164 -99.79 -113.66 REMARK 500 GLU A 165 -39.67 71.94 REMARK 500 ILE A 166 134.88 -35.04 REMARK 500 ASP A 176 149.25 -39.83 REMARK 500 LYS A 178 -74.29 -21.19 REMARK 500 SER A 181 -16.52 -44.68 REMARK 500 MET A 182 -73.34 -76.12 REMARK 500 LEU A 183 -51.26 -24.73 REMARK 500 TYR A 188 -55.63 -137.82 REMARK 500 ALA A 190 -179.04 -63.82 REMARK 500 GLU A 191 -26.39 -146.97 REMARK 500 LEU A 201 -11.57 87.18 REMARK 500 THR A 203 -71.87 -52.52 REMARK 500 ARG A 217 35.83 -75.51 REMARK 500 ASP A 224 133.38 178.18 REMARK 500 ASP A 232 102.88 -2.40 REMARK 500 SER A 268 -150.55 -103.72 REMARK 500 GLU A 279 55.58 -115.58 REMARK 500 THR A 281 -63.89 -106.04 REMARK 500 ARG A 282 -48.39 -23.08 REMARK 500 PHE A 283 -71.44 -59.68 REMARK 500 ALA A 284 -19.47 -48.24 REMARK 500 HIS A 307 72.24 -152.35 REMARK 500 ASP A 330 145.52 -37.54 REMARK 500 TYR A 334 66.88 -104.72 REMARK 500 ASP A 355 102.30 -44.53 REMARK 500 ALA A 356 120.37 -34.53 REMARK 500 ARG A 376 47.53 -84.74 REMARK 500 ASP A 377 42.41 -170.23 REMARK 500 ARG A 378 103.97 -166.67 REMARK 500 ARG A 380 -79.40 -16.54 REMARK 500 ARG A 394 79.49 -68.57 REMARK 500 TYR A 411 -13.84 -156.49 REMARK 500 PRO A 422 -74.81 -27.37 REMARK 500 REMARK 500 THIS ENTRY HAS 87 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 28 THR A 29 -46.93 REMARK 500 ASP A 31 GLU A 32 43.87 REMARK 500 PRO A 442 LEU A 443 -58.69 REMARK 500 ASP A 483 ILE A 484 141.68 REMARK 500 LEU A 587 ARG A 588 39.89 REMARK 500 GLY A 631 ALA A 632 -137.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE M7G A1645 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GUN A1646 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GUN A1647 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JH9 RELATED DB: PDB REMARK 900 THE STRUCTURE OF BLUETONGUE VIRUS VP4 REVEALS A MULTIFUNCTIONAL RNA- REMARK 900 CAPPING PRODUCTION-LINE REMARK 900 RELATED ID: 2JHA RELATED DB: PDB REMARK 900 THE STRUCTURE OF BLUETONGUE VIRUS VP4 REVEALS A MULTIFUNCTIONAL RNA- REMARK 900 CAPPING PRODUCTION-LINE REMARK 900 RELATED ID: 2JHC RELATED DB: PDB REMARK 900 THE STRUCTURE OF BLUETONGUE VIRUS VP4 REVEALS A MULTIFUNCTIONAL RNA- REMARK 900 CAPPING PRODUCTION-LINE DBREF 2JH8 A 1 644 UNP P07132 VP4_BTV10 1 644 SEQADV 2JH8 LEU A 261 UNP P07132 PRO 261 CONFLICT SEQRES 1 A 644 MET PRO GLU PRO HIS ALA VAL LEU TYR VAL THR ASN GLU SEQRES 2 A 644 LEU SER HIS ILE VAL LYS ASP GLY PHE LEU PRO ILE TRP SEQRES 3 A 644 LYS LEU THR GLY ASP GLU SER LEU ASN ASP LEU TRP LEU SEQRES 4 A 644 GLU ASN GLY LYS TYR ALA THR ASP VAL TYR ALA TYR GLY SEQRES 5 A 644 ASP VAL SER LYS TRP THR ILE ARG GLN LEU ARG GLY HIS SEQRES 6 A 644 GLY PHE ILE PHE ILE SER THR HIS LYS ASN VAL GLN LEU SEQRES 7 A 644 ALA ASP ILE ILE LYS THR VAL ASP VAL ARG ILE PRO ARG SEQRES 8 A 644 GLU VAL ALA ARG SER HIS ASP MET LYS ALA PHE GLU ASN SEQRES 9 A 644 GLU ILE GLY ARG ARG ARG ILE ARG MET ARG LYS GLY PHE SEQRES 10 A 644 GLY ASP ALA LEU ARG ASN TYR ALA PHE LYS MET ALA ILE SEQRES 11 A 644 GLU PHE HIS GLY SER GLU ALA GLU THR LEU ASN ASP ALA SEQRES 12 A 644 ASN PRO ARG LEU HIS LYS ILE TYR GLY MET PRO GLU ILE SEQRES 13 A 644 PRO PRO LEU TYR MET GLU TYR ALA GLU ILE GLY THR ARG SEQRES 14 A 644 PHE ASP ASP GLU PRO THR ASP GLU LYS LEU VAL SER MET SEQRES 15 A 644 LEU ASP TYR ILE VAL TYR SER ALA GLU GLU VAL HIS TYR SEQRES 16 A 644 ILE GLY CYS GLY ASP LEU ARG THR LEU MET GLN PHE LYS SEQRES 17 A 644 LYS ARG SER PRO GLY ARG PHE ARG ARG VAL LEU TRP HIS SEQRES 18 A 644 VAL TYR ASP PRO ILE ALA PRO GLU CYS SER ASP PRO ASN SEQRES 19 A 644 VAL ILE VAL HIS ASN ILE MET VAL ASP SER LYS LYS ASP SEQRES 20 A 644 ILE LEU LYS HIS MET ASN PHE LEU LYS ARG VAL GLU ARG SEQRES 21 A 644 LEU PHE ILE TRP ASP VAL SER SER ASP ARG SER GLN MET SEQRES 22 A 644 ASN ASP HIS GLU TRP GLU THR THR ARG PHE ALA GLU ASP SEQRES 23 A 644 ARG LEU GLY GLU GLU ILE ALA TYR GLU MET GLY GLY ALA SEQRES 24 A 644 PHE SER SER ALA LEU ILE LYS HIS ARG ILE PRO ASN SER SEQRES 25 A 644 LYS ASP GLU TYR HIS CYS ILE SER THR TYR LEU PHE PRO SEQRES 26 A 644 GLN PRO GLY ALA ASP ALA ASP MET TYR GLU LEU ARG ASN SEQRES 27 A 644 PHE MET ARG LEU ARG GLY TYR SER HIS VAL ASP ARG HIS SEQRES 28 A 644 MET HIS PRO ASP ALA SER VAL THR LYS VAL VAL SER ARG SEQRES 29 A 644 ASP VAL ARG LYS MET VAL GLU LEU TYR HIS GLY ARG ASP SEQRES 30 A 644 ARG GLY ARG PHE LEU LYS LYS ARG LEU PHE GLU HIS LEU SEQRES 31 A 644 HIS ILE VAL ARG LYS ASN GLY LEU LEU HIS GLU SER ASP SEQRES 32 A 644 GLU PRO ARG ALA ASP LEU PHE TYR LEU THR ASN ARG CYS SEQRES 33 A 644 ASN MET GLY LEU GLU PRO SER ILE TYR GLU VAL MET LYS SEQRES 34 A 644 LYS SER VAL ILE ALA THR ALA TRP VAL GLY ARG ALA PRO SEQRES 35 A 644 LEU TYR ASP TYR ASP ASP PHE ALA LEU PRO ARG SER THR SEQRES 36 A 644 VAL MET LEU ASN GLY SER TYR ARG ASP ILE ARG ILE LEU SEQRES 37 A 644 ASP GLY ASN GLY ALA ILE LEU PHE LEU MET TRP ARG TYR SEQRES 38 A 644 PRO ASP ILE VAL LYS LYS ASP LEU THR TYR ASP PRO ALA SEQRES 39 A 644 TRP ALA MET ASN PHE ALA VAL SER LEU LYS GLU PRO ILE SEQRES 40 A 644 PRO ASP PRO PRO VAL PRO ASP ILE SER LEU CYS ARG PHE SEQRES 41 A 644 ILE GLY LEU ARG VAL GLU SER SER VAL LEU ARG VAL ARG SEQRES 42 A 644 ASN PRO THR LEU HIS GLU THR ALA ASP GLU LEU LYS ARG SEQRES 43 A 644 MET GLY LEU ASP LEU SER GLY HIS LEU TYR VAL THR LEU SEQRES 44 A 644 MET SER GLY ALA TYR VAL THR ASP LEU PHE TRP TRP PHE SEQRES 45 A 644 LYS MET ILE LEU ASP TRP SER ALA GLN ASN ARG GLU GLN SEQRES 46 A 644 LYS LEU ARG ASP LEU LYS ARG SER ALA ALA GLU VAL ILE SEQRES 47 A 644 GLU TRP LYS GLU GLN MET ALA GLU ARG PRO TRP HIS VAL SEQRES 48 A 644 ARG ASN ASP LEU ILE ALA ALA LEU ARG GLU TYR LYS ARG SEQRES 49 A 644 LYS MET GLY MET ARG GLU GLY ALA SER ILE ASP SER TRP SEQRES 50 A 644 LEU GLU LEU LEU ARG HIS LEU HET M7G A1645 29 HET GUN A1646 11 HET GUN A1647 11 HETNAM M7G 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE HETNAM GUN GUANINE FORMUL 2 M7G C11 H18 N5 O11 P2 1+ FORMUL 3 GUN 2(C5 H5 N5 O) HELIX 1 1 LEU A 14 LYS A 19 1 6 HELIX 2 2 SER A 33 GLY A 42 1 10 HELIX 3 3 THR A 58 HIS A 65 1 8 HELIX 4 4 PRO A 90 ALA A 94 5 5 HELIX 5 5 ASP A 98 ALA A 129 1 32 HELIX 6 6 GLU A 136 ALA A 143 1 8 HELIX 7 7 GLU A 177 VAL A 187 1 11 HELIX 8 8 LEU A 201 SER A 211 1 11 HELIX 9 9 SER A 211 ARG A 217 1 7 HELIX 10 10 LYS A 245 LYS A 250 1 6 HELIX 11 11 GLU A 279 GLY A 297 1 19 HELIX 12 12 ASP A 349 HIS A 353 5 5 HELIX 13 13 VAL A 362 HIS A 374 1 13 HELIX 14 14 GLY A 379 ILE A 392 1 14 HELIX 15 15 ARG A 415 MET A 418 5 4 HELIX 16 16 LEU A 420 LYS A 429 1 10 HELIX 17 17 PRO A 452 SER A 461 1 10 HELIX 18 18 GLY A 470 TYR A 481 1 12 HELIX 19 19 ASP A 492 MET A 497 1 6 HELIX 20 20 GLY A 522 ASN A 534 1 13 HELIX 21 21 ASP A 550 SER A 561 1 12 HELIX 22 22 ASP A 567 ASP A 577 1 11 HELIX 23 23 VAL A 611 LYS A 625 1 15 HELIX 24 24 ILE A 634 ARG A 642 1 9 SHEET 1 AA 5 ILE A 25 LYS A 27 0 SHEET 2 AA 5 VAL A 48 TYR A 51 1 O TYR A 49 N TRP A 26 SHEET 3 AA 5 VAL A 7 VAL A 10 1 O LEU A 8 N ALA A 50 SHEET 4 AA 5 PHE A 67 SER A 71 1 O ILE A 68 N TYR A 9 SHEET 5 AA 5 VAL A 87 ARG A 88 1 O VAL A 87 N SER A 71 SHEET 1 AB 2 ASN A 75 GLN A 77 0 SHEET 2 AB 2 ILE A 82 THR A 84 -1 O LYS A 83 N VAL A 76 SHEET 1 AC 5 GLU A 131 HIS A 133 0 SHEET 2 AC 5 ARG A 406 ASP A 408 1 O ALA A 407 N HIS A 133 SHEET 3 AC 5 ILE A 433 TRP A 437 1 O ILE A 433 N ASP A 408 SHEET 4 AC 5 PHE A 499 LYS A 504 -1 O ALA A 500 N ALA A 436 SHEET 5 AC 5 ILE A 465 ASP A 469 -1 O ARG A 466 N LEU A 503 SHEET 1 AD 2 TYR A 151 GLY A 152 0 SHEET 2 AD 2 VAL A 393 ARG A 394 0 SHEET 1 AE 7 VAL A 235 HIS A 238 0 SHEET 2 AE 7 LEU A 219 TYR A 223 1 O TRP A 220 N ILE A 236 SHEET 3 AE 7 GLU A 192 ILE A 196 1 O VAL A 193 N HIS A 221 SHEET 4 AE 7 ARG A 260 TRP A 264 1 O LEU A 261 N HIS A 194 SHEET 5 AE 7 SER A 302 ARG A 308 1 O SER A 302 N PHE A 262 SHEET 6 AE 7 GLU A 335 ARG A 341 -1 O LEU A 336 N HIS A 307 SHEET 7 AE 7 TYR A 322 PHE A 324 -1 O TYR A 322 N PHE A 339 SHEET 1 AF 2 TYR A 316 SER A 320 0 SHEET 2 AF 2 SER A 357 VAL A 361 -1 O SER A 357 N SER A 320 CISPEP 1 ALA A 94 ARG A 95 0 -28.51 CISPEP 2 ARG A 95 SER A 96 0 20.83 CISPEP 3 GLU A 162 TYR A 163 0 -1.65 CISPEP 4 ILE A 166 GLY A 167 0 5.92 CISPEP 5 GLY A 167 THR A 168 0 -17.98 CISPEP 6 ASP A 509 PRO A 510 0 14.16 CISPEP 7 SER A 579 ALA A 580 0 -1.36 CISPEP 8 ALA A 580 GLN A 581 0 -13.25 CISPEP 9 LYS A 591 ARG A 592 0 25.54 CISPEP 10 GLU A 630 GLY A 631 0 -12.10 CISPEP 11 ALA A 632 SER A 633 0 -18.65 CISPEP 12 SER A 633 ILE A 634 0 24.53 SITE 1 AC1 8 ARG A 91 ARG A 282 ILE A 309 PRO A 310 SITE 2 AC1 8 ASN A 311 ASP A 332 TYR A 334 ARG A 367 SITE 1 AC2 3 ASN A 141 ASP A 184 TYR A 185 SITE 1 AC3 6 ARG A 114 PHE A 117 GLY A 118 ARG A 122 SITE 2 AC3 6 TYR A 446 TRP A 495 CRYST1 75.055 75.055 419.834 90.00 90.00 120.00 P 65 2 2 12 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 0.013324 0.007692 0.000000 0.00000 SCALE2 0.000000 0.015385 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002382 0.00000