HEADER VIRAL PROTEIN 31-AUG-22 8AXF TITLE CRYSTAL STRUCTURE OF FMV N BOUND TO 42-MER SSRNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOCAPSID PROTEIN; COMPND 3 CHAIN: A, D, C, B; COMPND 4 FRAGMENT: NUCLEOPROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA (42-MER); COMPND 9 CHAIN: Q; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMARAVIRUS FICI; SOURCE 3 ORGANISM_TAXID: 1980427; SOURCE 4 GENE: NP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS NUCLEOPROTEIN, GENOME PACKAGING, VIRUS, RNA, FIG MOSAIC VIRUS, VIRAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.IZHAKI-TAVOR,I.YECHEZKEL,M.DESSAU REVDAT 5 13-NOV-24 8AXF 1 JRNL REVDAT 4 07-FEB-24 8AXF 1 REMARK REVDAT 3 28-JUN-23 8AXF 1 JRNL REVDAT 2 19-APR-23 8AXF 1 JRNL REVDAT 1 05-APR-23 8AXF 0 JRNL AUTH L.S.IZHAKI-TAVOR,I.G.YECHEZKEL,J.ALTER,M.DESSAU JRNL TITL RNA ENCAPSULATION MODE AND EVOLUTIONARY INSIGHTS FROM THE JRNL TITL 2 CRYSTAL STRUCTURE OF EMARAVIRUS NUCLEOPROTEIN. JRNL REF MICROBIOL SPECTR V. 11 01822 2023 JRNL REFN ISSN 2165-0497 JRNL PMID 37039649 JRNL DOI 10.1128/SPECTRUM.05018-22 REMARK 2 REMARK 2 RESOLUTION. 2.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 45826 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.360 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.4900 - 6.1200 1.00 3377 154 0.1844 0.1755 REMARK 3 2 6.1200 - 4.8600 1.00 3214 147 0.2004 0.2377 REMARK 3 3 4.8600 - 4.2500 1.00 3208 146 0.1750 0.1881 REMARK 3 4 4.2500 - 3.8600 1.00 3154 144 0.1794 0.2020 REMARK 3 5 3.8600 - 3.5800 1.00 3155 145 0.2196 0.2427 REMARK 3 6 3.5800 - 3.3700 1.00 3156 143 0.2396 0.2668 REMARK 3 7 3.3700 - 3.2000 1.00 3139 143 0.2679 0.3324 REMARK 3 8 3.2000 - 3.0600 1.00 3116 143 0.3219 0.3629 REMARK 3 9 3.0600 - 2.9400 1.00 3097 141 0.3155 0.3508 REMARK 3 10 2.9400 - 2.8400 1.00 3135 143 0.3040 0.3529 REMARK 3 11 2.8400 - 2.7500 1.00 3104 142 0.2989 0.3544 REMARK 3 12 2.7500 - 2.6800 1.00 3095 140 0.2974 0.3168 REMARK 3 13 2.6800 - 2.6100 1.00 3143 144 0.3358 0.3609 REMARK 3 14 2.6100 - 2.5400 0.90 2733 125 0.4029 0.4328 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.730 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.49 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 82.20 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -27.7967 5.9495 60.7915 REMARK 3 T TENSOR REMARK 3 T11: 0.3820 T22: 0.4606 REMARK 3 T33: 0.4838 T12: -0.0298 REMARK 3 T13: -0.0186 T23: -0.0211 REMARK 3 L TENSOR REMARK 3 L11: 0.1599 L22: 0.2494 REMARK 3 L33: 0.9245 L12: 0.0351 REMARK 3 L13: -0.0397 L23: 0.4175 REMARK 3 S TENSOR REMARK 3 S11: -0.0018 S12: -0.0206 S13: -0.0443 REMARK 3 S21: -0.0421 S22: -0.0021 S23: 0.0524 REMARK 3 S31: -0.0638 S32: 0.1060 S33: 0.0262 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8AXF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1292125291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.072 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45871 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.540 REMARK 200 RESOLUTION RANGE LOW (A) : 48.490 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 7.321 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.67 REMARK 200 R MERGE FOR SHELL (I) : 1.59100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.170 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 8AX4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350 0.2 M MG-FORMATE, PH 5.9, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 26.58500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 84.78500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 75.91000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 84.78500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.58500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 75.91000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 26370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -284.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, Q, D, C, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 0 REMARK 465 ALA A 1 REMARK 465 PRO A 2 REMARK 465 LYS A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 THR A 6 REMARK 465 THR A 7 REMARK 465 SER A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 LYS A 13 REMARK 465 ILE A 14 REMARK 465 THR A 15 REMARK 465 PRO A 16 REMARK 465 GLY A 17 REMARK 465 GLN A 18 REMARK 465 MET A 19 REMARK 465 GLN A 20 REMARK 465 GLU A 21 REMARK 465 ASN A 22 REMARK 465 THR A 23 REMARK 465 VAL A 24 REMARK 465 LEU A 25 REMARK 465 LEU A 26 REMARK 465 GLY A 27 REMARK 465 SER A 28 REMARK 465 GLY A 29 REMARK 465 SER A 30 REMARK 465 LYS A 31 REMARK 465 LEU A 32 REMARK 465 LYS A 33 REMARK 465 ALA A 34 REMARK 465 ILE A 35 REMARK 465 LYS A 36 REMARK 465 LEU A 37 REMARK 465 THR A 38 REMARK 465 ASN A 39 REMARK 465 VAL A 40 REMARK 465 VAL A 41 REMARK 465 ASN A 42 REMARK 465 GLY A 43 REMARK 465 LYS A 44 REMARK 465 LEU A 45 REMARK 465 THR A 46 REMARK 465 HIS A 47 REMARK 465 PRO A 48 REMARK 465 GLU A 49 REMARK 465 THR A 50 REMARK 465 SER A 67 REMARK 465 GLN A 68 REMARK 465 ASN A 69 REMARK 465 ILE A 70 REMARK 465 HIS A 313 REMARK 465 VAL A 314 REMARK 465 MET D 0 REMARK 465 ALA D 1 REMARK 465 PRO D 2 REMARK 465 LYS D 3 REMARK 465 SER D 4 REMARK 465 LYS D 5 REMARK 465 THR D 6 REMARK 465 THR D 7 REMARK 465 SER D 8 REMARK 465 ALA D 9 REMARK 465 SER D 10 REMARK 465 SER D 11 REMARK 465 SER D 12 REMARK 465 LYS D 13 REMARK 465 ILE D 14 REMARK 465 THR D 15 REMARK 465 PRO D 16 REMARK 465 GLY D 17 REMARK 465 GLN D 18 REMARK 465 MET D 19 REMARK 465 GLN D 20 REMARK 465 GLU D 21 REMARK 465 ASN D 22 REMARK 465 THR D 23 REMARK 465 VAL D 24 REMARK 465 LEU D 25 REMARK 465 LEU D 26 REMARK 465 GLY D 27 REMARK 465 SER D 28 REMARK 465 GLY D 29 REMARK 465 SER D 30 REMARK 465 LYS D 31 REMARK 465 LEU D 32 REMARK 465 LYS D 33 REMARK 465 ALA D 34 REMARK 465 ILE D 35 REMARK 465 LYS D 36 REMARK 465 LEU D 37 REMARK 465 THR D 38 REMARK 465 ASN D 39 REMARK 465 VAL D 40 REMARK 465 VAL D 41 REMARK 465 ASN D 42 REMARK 465 GLY D 43 REMARK 465 LYS D 44 REMARK 465 LEU D 45 REMARK 465 THR D 46 REMARK 465 HIS D 47 REMARK 465 PRO D 48 REMARK 465 GLU D 49 REMARK 465 THR D 50 REMARK 465 SER D 51 REMARK 465 MET C 0 REMARK 465 ALA C 1 REMARK 465 PRO C 2 REMARK 465 LYS C 3 REMARK 465 SER C 4 REMARK 465 LYS C 5 REMARK 465 THR C 6 REMARK 465 THR C 7 REMARK 465 SER C 8 REMARK 465 ALA C 9 REMARK 465 SER C 10 REMARK 465 SER C 11 REMARK 465 SER C 12 REMARK 465 LYS C 13 REMARK 465 ILE C 14 REMARK 465 THR C 15 REMARK 465 PRO C 16 REMARK 465 GLY C 17 REMARK 465 GLN C 18 REMARK 465 MET C 19 REMARK 465 GLN C 20 REMARK 465 GLU C 21 REMARK 465 ASN C 22 REMARK 465 THR C 23 REMARK 465 VAL C 24 REMARK 465 LEU C 25 REMARK 465 LEU C 26 REMARK 465 GLY C 27 REMARK 465 SER C 28 REMARK 465 GLY C 29 REMARK 465 SER C 30 REMARK 465 LYS C 31 REMARK 465 LEU C 32 REMARK 465 LYS C 33 REMARK 465 ALA C 34 REMARK 465 ILE C 35 REMARK 465 LYS C 36 REMARK 465 LEU C 37 REMARK 465 THR C 38 REMARK 465 ASN C 39 REMARK 465 VAL C 40 REMARK 465 VAL C 41 REMARK 465 ASN C 42 REMARK 465 GLY C 43 REMARK 465 LYS C 44 REMARK 465 LEU C 45 REMARK 465 THR C 46 REMARK 465 HIS C 47 REMARK 465 PRO C 48 REMARK 465 GLU C 49 REMARK 465 THR C 50 REMARK 465 HIS C 313 REMARK 465 VAL C 314 REMARK 465 MET B 0 REMARK 465 ALA B 1 REMARK 465 PRO B 2 REMARK 465 LYS B 3 REMARK 465 SER B 4 REMARK 465 LYS B 5 REMARK 465 THR B 6 REMARK 465 THR B 7 REMARK 465 SER B 8 REMARK 465 ALA B 9 REMARK 465 SER B 10 REMARK 465 SER B 11 REMARK 465 SER B 12 REMARK 465 LYS B 13 REMARK 465 ILE B 14 REMARK 465 THR B 15 REMARK 465 PRO B 16 REMARK 465 GLY B 17 REMARK 465 GLN B 18 REMARK 465 MET B 19 REMARK 465 GLN B 20 REMARK 465 GLU B 21 REMARK 465 ASN B 22 REMARK 465 THR B 23 REMARK 465 VAL B 24 REMARK 465 LEU B 25 REMARK 465 LEU B 26 REMARK 465 GLY B 27 REMARK 465 SER B 28 REMARK 465 GLY B 29 REMARK 465 SER B 30 REMARK 465 LYS B 31 REMARK 465 LEU B 32 REMARK 465 LYS B 33 REMARK 465 ALA B 34 REMARK 465 ILE B 35 REMARK 465 LYS B 36 REMARK 465 LEU B 37 REMARK 465 THR B 38 REMARK 465 ASN B 39 REMARK 465 VAL B 40 REMARK 465 VAL B 41 REMARK 465 ASN B 42 REMARK 465 GLY B 43 REMARK 465 LYS B 44 REMARK 465 LEU B 45 REMARK 465 THR B 46 REMARK 465 HIS B 47 REMARK 465 PRO B 48 REMARK 465 GLU B 49 REMARK 465 THR B 50 REMARK 465 SER B 51 REMARK 465 ASP B 52 REMARK 465 GLN B 68 REMARK 465 ASN B 69 REMARK 465 ILE B 70 REMARK 465 ALA B 312 REMARK 465 HIS B 313 REMARK 465 VAL B 314 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 ALA A 103 -70.88 -93.24 REMARK 500 SER A 125 120.63 -171.12 REMARK 500 ASN D 80 35.36 -92.99 REMARK 500 LYS C 54 59.31 28.49 REMARK 500 ASN C 123 -120.23 61.05 REMARK 500 THR C 166 -130.69 51.58 REMARK 500 TYR C 206 73.02 -118.56 REMARK 500 TYR C 220 42.09 -108.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 470 DISTANCE = 5.83 ANGSTROMS 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 MG Q 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 182 OE1 REMARK 620 2 U Q 9 OP1 99.6 REMARK 620 3 U Q 10 OP2 117.2 68.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG Q 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U Q 30 OP1 REMARK 620 2 U Q 31 OP2 70.4 REMARK 620 3 GLN D 182 OE1 122.1 103.3 REMARK 620 N 1 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8AX4 RELATED DB: PDB REMARK 900 8AX4 IS THE RNA-FREE FORM OF THIS ENTRY DBREF 8AXF A 0 314 UNP I2FFM8 I2FFM8_9VIRU 1 315 DBREF 8AXF Q 1 42 PDB 8AXF 8AXF 1 42 DBREF 8AXF D 0 314 UNP I2FFM8 I2FFM8_9VIRU 1 315 DBREF 8AXF C 0 314 UNP I2FFM8 I2FFM8_9VIRU 1 315 DBREF 8AXF B 0 314 UNP I2FFM8 I2FFM8_9VIRU 1 315 SEQRES 1 A 315 MET ALA PRO LYS SER LYS THR THR SER ALA SER SER SER SEQRES 2 A 315 LYS ILE THR PRO GLY GLN MET GLN GLU ASN THR VAL LEU SEQRES 3 A 315 LEU GLY SER GLY SER LYS LEU LYS ALA ILE LYS LEU THR SEQRES 4 A 315 ASN VAL VAL ASN GLY LYS LEU THR HIS PRO GLU THR SER SEQRES 5 A 315 ASP LEU LYS PRO ILE ASP VAL GLU VAL GLN ALA PHE THR SEQRES 6 A 315 SER ALA SER GLN ASN ILE SER ASN PHE THR LEU HIS LYS SEQRES 7 A 315 TYR ARG ASN ILE CYS HIS VAL ASP THR CYS ALA ALA HIS SEQRES 8 A 315 LEU SER LYS SER LYS GLU ASN LYS GLU LYS LEU GLN ALA SEQRES 9 A 315 ARG ASN LEU ARG LEU ILE VAL SER SER ASN GLU PHE LEU SEQRES 10 A 315 VAL VAL VAL LYS GLU LEU ASN ASP SER THR VAL ASP ASN SEQRES 11 A 315 VAL VAL SER PHE ASN LYS ALA CYS ALA ILE MET SER ALA SEQRES 12 A 315 GLY VAL LEU LYS HIS THR PHE ASP GLU GLU PHE ASP TRP SEQRES 13 A 315 LYS LEU SER LYS TYR VAL LYS THR ASN ASN THR THR LYS SEQRES 14 A 315 VAL ILE PRO ASP VAL LYS ILE ILE ASN ARG LEU ALA GLY SEQRES 15 A 315 GLN MET GLY LEU SER ALA GLY ASN PRO TYR TYR TRP MET SEQRES 16 A 315 ILE VAL PRO GLY TYR GLU PHE LEU TYR GLU LEU TYR PRO SEQRES 17 A 315 ALA GLU VAL LEU ALA TYR THR LEU VAL ARG LEU GLN TYR SEQRES 18 A 315 ARG LYS ASN LEU ASN ILE PRO ASP SER MET THR ASP ALA SEQRES 19 A 315 ASP ILE VAL SER SER LEU VAL MET LYS MET ASN ARG ILE SEQRES 20 A 315 HIS LYS LEU GLU GLN THR SER PHE ASP GLU ALA LEU ASN SEQRES 21 A 315 LEU ILE GLY LYS ASP ASN VAL SER GLU ALA TYR VAL GLU SEQRES 22 A 315 LEU ALA ARG ASP ILE GLY SER THR SER LYS THR LYS ARG SEQRES 23 A 315 ASN ASP GLU ALA ILE LEU LYS PHE ARG GLU LEU ILE ALA SEQRES 24 A 315 SER PHE LEU PRO ALA LEU GLU ALA ASP ARG ILE ALA SER SEQRES 25 A 315 ALA HIS VAL SEQRES 1 Q 42 U U U U U U U U U U U U U SEQRES 2 Q 42 U U U U U U U U U U U U U SEQRES 3 Q 42 U U U U U U U U U U U U U SEQRES 4 Q 42 U U U SEQRES 1 D 315 MET ALA PRO LYS SER LYS THR THR SER ALA SER SER SER SEQRES 2 D 315 LYS ILE THR PRO GLY GLN MET GLN GLU ASN THR VAL LEU SEQRES 3 D 315 LEU GLY SER GLY SER LYS LEU LYS ALA ILE LYS LEU THR SEQRES 4 D 315 ASN VAL VAL ASN GLY LYS LEU THR HIS PRO GLU THR SER SEQRES 5 D 315 ASP LEU LYS PRO ILE ASP VAL GLU VAL GLN ALA PHE THR SEQRES 6 D 315 SER ALA SER GLN ASN ILE SER ASN PHE THR LEU HIS LYS SEQRES 7 D 315 TYR ARG ASN ILE CYS HIS VAL ASP THR CYS ALA ALA HIS SEQRES 8 D 315 LEU SER LYS SER LYS GLU ASN LYS GLU LYS LEU GLN ALA SEQRES 9 D 315 ARG ASN LEU ARG LEU ILE VAL SER SER ASN GLU PHE LEU SEQRES 10 D 315 VAL VAL VAL LYS GLU LEU ASN ASP SER THR VAL ASP ASN SEQRES 11 D 315 VAL VAL SER PHE ASN LYS ALA CYS ALA ILE MET SER ALA SEQRES 12 D 315 GLY VAL LEU LYS HIS THR PHE ASP GLU GLU PHE ASP TRP SEQRES 13 D 315 LYS LEU SER LYS TYR VAL LYS THR ASN ASN THR THR LYS SEQRES 14 D 315 VAL ILE PRO ASP VAL LYS ILE ILE ASN ARG LEU ALA GLY SEQRES 15 D 315 GLN MET GLY LEU SER ALA GLY ASN PRO TYR TYR TRP MET SEQRES 16 D 315 ILE VAL PRO GLY TYR GLU PHE LEU TYR GLU LEU TYR PRO SEQRES 17 D 315 ALA GLU VAL LEU ALA TYR THR LEU VAL ARG LEU GLN TYR SEQRES 18 D 315 ARG LYS ASN LEU ASN ILE PRO ASP SER MET THR ASP ALA SEQRES 19 D 315 ASP ILE VAL SER SER LEU VAL MET LYS MET ASN ARG ILE SEQRES 20 D 315 HIS LYS LEU GLU GLN THR SER PHE ASP GLU ALA LEU ASN SEQRES 21 D 315 LEU ILE GLY LYS ASP ASN VAL SER GLU ALA TYR VAL GLU SEQRES 22 D 315 LEU ALA ARG ASP ILE GLY SER THR SER LYS THR LYS ARG SEQRES 23 D 315 ASN ASP GLU ALA ILE LEU LYS PHE ARG GLU LEU ILE ALA SEQRES 24 D 315 SER PHE LEU PRO ALA LEU GLU ALA ASP ARG ILE ALA SER SEQRES 25 D 315 ALA HIS VAL SEQRES 1 C 315 MET ALA PRO LYS SER LYS THR THR SER ALA SER SER SER SEQRES 2 C 315 LYS ILE THR PRO GLY GLN MET GLN GLU ASN THR VAL LEU SEQRES 3 C 315 LEU GLY SER GLY SER LYS LEU LYS ALA ILE LYS LEU THR SEQRES 4 C 315 ASN VAL VAL ASN GLY LYS LEU THR HIS PRO GLU THR SER SEQRES 5 C 315 ASP LEU LYS PRO ILE ASP VAL GLU VAL GLN ALA PHE THR SEQRES 6 C 315 SER ALA SER GLN ASN ILE SER ASN PHE THR LEU HIS LYS SEQRES 7 C 315 TYR ARG ASN ILE CYS HIS VAL ASP THR CYS ALA ALA HIS SEQRES 8 C 315 LEU SER LYS SER LYS GLU ASN LYS GLU LYS LEU GLN ALA SEQRES 9 C 315 ARG ASN LEU ARG LEU ILE VAL SER SER ASN GLU PHE LEU SEQRES 10 C 315 VAL VAL VAL LYS GLU LEU ASN ASP SER THR VAL ASP ASN SEQRES 11 C 315 VAL VAL SER PHE ASN LYS ALA CYS ALA ILE MET SER ALA SEQRES 12 C 315 GLY VAL LEU LYS HIS THR PHE ASP GLU GLU PHE ASP TRP SEQRES 13 C 315 LYS LEU SER LYS TYR VAL LYS THR ASN ASN THR THR LYS SEQRES 14 C 315 VAL ILE PRO ASP VAL LYS ILE ILE ASN ARG LEU ALA GLY SEQRES 15 C 315 GLN MET GLY LEU SER ALA GLY ASN PRO TYR TYR TRP MET SEQRES 16 C 315 ILE VAL PRO GLY TYR GLU PHE LEU TYR GLU LEU TYR PRO SEQRES 17 C 315 ALA GLU VAL LEU ALA TYR THR LEU VAL ARG LEU GLN TYR SEQRES 18 C 315 ARG LYS ASN LEU ASN ILE PRO ASP SER MET THR ASP ALA SEQRES 19 C 315 ASP ILE VAL SER SER LEU VAL MET LYS MET ASN ARG ILE SEQRES 20 C 315 HIS LYS LEU GLU GLN THR SER PHE ASP GLU ALA LEU ASN SEQRES 21 C 315 LEU ILE GLY LYS ASP ASN VAL SER GLU ALA TYR VAL GLU SEQRES 22 C 315 LEU ALA ARG ASP ILE GLY SER THR SER LYS THR LYS ARG SEQRES 23 C 315 ASN ASP GLU ALA ILE LEU LYS PHE ARG GLU LEU ILE ALA SEQRES 24 C 315 SER PHE LEU PRO ALA LEU GLU ALA ASP ARG ILE ALA SER SEQRES 25 C 315 ALA HIS VAL SEQRES 1 B 315 MET ALA PRO LYS SER LYS THR THR SER ALA SER SER SER SEQRES 2 B 315 LYS ILE THR PRO GLY GLN MET GLN GLU ASN THR VAL LEU SEQRES 3 B 315 LEU GLY SER GLY SER LYS LEU LYS ALA ILE LYS LEU THR SEQRES 4 B 315 ASN VAL VAL ASN GLY LYS LEU THR HIS PRO GLU THR SER SEQRES 5 B 315 ASP LEU LYS PRO ILE ASP VAL GLU VAL GLN ALA PHE THR SEQRES 6 B 315 SER ALA SER GLN ASN ILE SER ASN PHE THR LEU HIS LYS SEQRES 7 B 315 TYR ARG ASN ILE CYS HIS VAL ASP THR CYS ALA ALA HIS SEQRES 8 B 315 LEU SER LYS SER LYS GLU ASN LYS GLU LYS LEU GLN ALA SEQRES 9 B 315 ARG ASN LEU ARG LEU ILE VAL SER SER ASN GLU PHE LEU SEQRES 10 B 315 VAL VAL VAL LYS GLU LEU ASN ASP SER THR VAL ASP ASN SEQRES 11 B 315 VAL VAL SER PHE ASN LYS ALA CYS ALA ILE MET SER ALA SEQRES 12 B 315 GLY VAL LEU LYS HIS THR PHE ASP GLU GLU PHE ASP TRP SEQRES 13 B 315 LYS LEU SER LYS TYR VAL LYS THR ASN ASN THR THR LYS SEQRES 14 B 315 VAL ILE PRO ASP VAL LYS ILE ILE ASN ARG LEU ALA GLY SEQRES 15 B 315 GLN MET GLY LEU SER ALA GLY ASN PRO TYR TYR TRP MET SEQRES 16 B 315 ILE VAL PRO GLY TYR GLU PHE LEU TYR GLU LEU TYR PRO SEQRES 17 B 315 ALA GLU VAL LEU ALA TYR THR LEU VAL ARG LEU GLN TYR SEQRES 18 B 315 ARG LYS ASN LEU ASN ILE PRO ASP SER MET THR ASP ALA SEQRES 19 B 315 ASP ILE VAL SER SER LEU VAL MET LYS MET ASN ARG ILE SEQRES 20 B 315 HIS LYS LEU GLU GLN THR SER PHE ASP GLU ALA LEU ASN SEQRES 21 B 315 LEU ILE GLY LYS ASP ASN VAL SER GLU ALA TYR VAL GLU SEQRES 22 B 315 LEU ALA ARG ASP ILE GLY SER THR SER LYS THR LYS ARG SEQRES 23 B 315 ASN ASP GLU ALA ILE LEU LYS PHE ARG GLU LEU ILE ALA SEQRES 24 B 315 SER PHE LEU PRO ALA LEU GLU ALA ASP ARG ILE ALA SER SEQRES 25 B 315 ALA HIS VAL HET MG Q 101 1 HET MG Q 102 1 HET MG Q 103 1 HET GOL B 401 6 HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 6 MG 3(MG 2+) FORMUL 9 GOL C3 H8 O3 FORMUL 10 HOH *285(H2 O) HELIX 1 AA1 THR A 74 TYR A 78 5 5 HELIX 2 AA2 HIS A 83 SER A 92 1 10 HELIX 3 AA3 LYS A 93 ARG A 104 1 12 HELIX 4 AA4 SER A 132 LYS A 146 1 15 HELIX 5 AA5 ASN A 177 MET A 183 1 7 HELIX 6 AA6 TYR A 191 ILE A 195 5 5 HELIX 7 AA7 GLY A 198 LEU A 205 5 8 HELIX 8 AA8 TYR A 206 TYR A 220 1 15 HELIX 9 AA9 THR A 231 LYS A 248 1 18 HELIX 10 AB1 SER A 253 ILE A 261 1 9 HELIX 11 AB2 GLY A 262 ARG A 275 1 14 HELIX 12 AB3 SER A 281 PHE A 300 1 20 HELIX 13 AB4 PHE A 300 ALA A 312 1 13 HELIX 14 AB5 THR D 74 ARG D 79 5 6 HELIX 15 AB6 HIS D 83 LYS D 93 1 11 HELIX 16 AB7 LYS D 93 ARG D 104 1 12 HELIX 17 AB8 SER D 132 PHE D 149 1 18 HELIX 18 AB9 ASN D 177 GLN D 182 1 6 HELIX 19 AC1 GLY D 198 LEU D 205 5 8 HELIX 20 AC2 TYR D 206 TYR D 220 1 15 HELIX 21 AC3 THR D 231 HIS D 247 1 17 HELIX 22 AC4 SER D 253 ILE D 261 1 9 HELIX 23 AC5 GLY D 262 ARG D 275 1 14 HELIX 24 AC6 SER D 281 ALA D 310 1 30 HELIX 25 AC7 THR C 64 ASN C 69 1 6 HELIX 26 AC8 THR C 74 ARG C 79 5 6 HELIX 27 AC9 HIS C 83 SER C 92 1 10 HELIX 28 AD1 LYS C 93 ARG C 104 1 12 HELIX 29 AD2 SER C 132 PHE C 149 1 18 HELIX 30 AD3 ASN C 177 MET C 183 1 7 HELIX 31 AD4 ASN C 189 ILE C 195 5 7 HELIX 32 AD5 GLY C 198 LEU C 205 5 8 HELIX 33 AD6 TYR C 206 TYR C 220 1 15 HELIX 34 AD7 THR C 231 LYS C 248 1 18 HELIX 35 AD8 SER C 253 ILE C 261 1 9 HELIX 36 AD9 GLY C 262 ARG C 275 1 14 HELIX 37 AE1 SER C 281 SER C 311 1 31 HELIX 38 AE2 THR B 74 ARG B 79 5 6 HELIX 39 AE3 HIS B 83 LYS B 93 1 11 HELIX 40 AE4 LYS B 93 ARG B 104 1 12 HELIX 41 AE5 SER B 132 PHE B 149 1 18 HELIX 42 AE6 ASN B 177 MET B 183 1 7 HELIX 43 AE7 GLY B 198 LEU B 205 5 8 HELIX 44 AE8 TYR B 206 TYR B 220 1 15 HELIX 45 AE9 THR B 231 LYS B 248 1 18 HELIX 46 AF1 SER B 253 GLY B 262 1 10 HELIX 47 AF2 GLY B 262 ALA B 274 1 13 HELIX 48 AF3 SER B 281 SER B 311 1 31 SHEET 1 AA1 4 ILE A 56 ASP A 57 0 SHEET 2 AA1 4 LEU C 106 ILE C 109 1 O ARG C 107 N ILE A 56 SHEET 3 AA1 4 PHE C 115 VAL C 118 -1 O LEU C 116 N LEU C 108 SHEET 4 AA1 4 VAL C 130 VAL C 131 1 O VAL C 131 N VAL C 117 SHEET 1 AA2 4 VAL A 130 VAL A 131 0 SHEET 2 AA2 4 PHE A 115 VAL A 118 1 N VAL A 117 O VAL A 131 SHEET 3 AA2 4 ASN A 105 ILE A 109 -1 N LEU A 106 O VAL A 118 SHEET 4 AA2 4 PRO B 55 VAL B 58 1 O ILE B 56 N ARG A 107 SHEET 1 AA3 2 GLU A 151 ASP A 154 0 SHEET 2 AA3 2 LYS A 159 LYS A 162 -1 O VAL A 161 N GLU A 152 SHEET 1 AA4 4 ILE D 56 ASP D 57 0 SHEET 2 AA4 4 LEU B 106 SER B 111 1 O ARG B 107 N ILE D 56 SHEET 3 AA4 4 GLU B 114 VAL B 118 -1 O LEU B 116 N LEU B 108 SHEET 4 AA4 4 VAL B 130 VAL B 131 1 O VAL B 131 N VAL B 117 SHEET 1 AA5 4 VAL D 130 VAL D 131 0 SHEET 2 AA5 4 PHE D 115 VAL D 118 1 N VAL D 117 O VAL D 131 SHEET 3 AA5 4 LEU D 106 ILE D 109 -1 N LEU D 108 O LEU D 116 SHEET 4 AA5 4 ILE C 56 ASP C 57 1 O ILE C 56 N ARG D 107 SHEET 1 AA6 2 GLU D 151 ASP D 154 0 SHEET 2 AA6 2 LYS D 159 LYS D 162 -1 O VAL D 161 N GLU D 152 SHEET 1 AA7 2 GLU C 151 ASP C 154 0 SHEET 2 AA7 2 LYS C 159 LYS C 162 -1 O VAL C 161 N GLU C 152 SHEET 1 AA8 2 GLU B 151 ASP B 154 0 SHEET 2 AA8 2 LYS B 159 LYS B 162 -1 O VAL B 161 N GLU B 152 SSBOND 1 CYS C 82 CYS C 87 1555 1555 2.02 SSBOND 2 CYS B 82 CYS B 87 1555 1555 2.03 LINK OE1 GLN A 182 MG MG Q 103 1555 1555 2.70 LINK OP1 U Q 9 MG MG Q 103 1555 1555 2.30 LINK OP2 U Q 10 MG MG Q 103 1555 1555 2.86 LINK OP1 U Q 19 MG MG Q 102 1555 1555 1.98 LINK OP1 U Q 30 MG MG Q 101 1555 1555 2.37 LINK OP2 U Q 31 MG MG Q 101 1555 1555 2.82 LINK MG MG Q 101 OE1 GLN D 182 1555 1555 2.64 CRYST1 53.170 151.820 169.570 90.00 90.00 90.00 P 21 21 21 16 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 0.018808 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006587 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005897 0.00000