HEADER VIRAL PROTEIN 01-APR-21 7O35 TITLE CRYSTAL STRUCTURE OF SARS-COV-2 N-CTD IN COMPLEX WITH GTP (I) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOPROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: N,NUCLEOCAPSID PROTEIN,NC,PROTEIN N; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: THE INITIAL RESIDUES MGSSHHHHHHGENLYFQS- CORRESPOND TO COMPND 7 THE PURIFICATION TAG. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS NUCLEOCAPSID, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.R.CIGES-TOMAS,M.VILAR REVDAT 3 31-JAN-24 7O35 1 REMARK REVDAT 2 26-OCT-22 7O35 1 JRNL REVDAT 1 13-APR-22 7O35 0 JRNL AUTH J.RAFAEL CIGES-TOMAS,M.L.FRANCO,M.VILAR JRNL TITL IDENTIFICATION OF A GUANINE-SPECIFIC POCKET IN THE PROTEIN N JRNL TITL 2 OF SARS-COV-2. JRNL REF COMMUN BIOL V. 5 711 2022 JRNL REFN ESSN 2399-3642 JRNL PMID 35842466 JRNL DOI 10.1038/S42003-022-03647-8 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 47930 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 + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2511 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3480 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.47 REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 182 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3629 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 442 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.15000 REMARK 3 B22 (A**2) : 4.25000 REMARK 3 B33 (A**2) : -2.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.18000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.110 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.626 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3805 ; 0.020 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3557 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5155 ; 1.937 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8196 ; 1.060 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 460 ; 6.490 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 182 ;31.248 ;23.736 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 643 ;15.089 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;16.518 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 528 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4357 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 941 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7O35 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-APR-21. REMARK 100 THE DEPOSITION ID IS D_1292115020. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 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 : AIMLESS 0.5.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50472 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 92.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.39500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6WZO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 3350 0.1 M SODIUM ACETATE PH REMARK 280 4.6, VAPOR DIFFUSION, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 46.35950 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 229 REMARK 465 GLY A 230 REMARK 465 SER A 231 REMARK 465 SER A 232 REMARK 465 HIS A 233 REMARK 465 HIS A 234 REMARK 465 HIS A 235 REMARK 465 HIS A 236 REMARK 465 HIS A 237 REMARK 465 HIS A 238 REMARK 465 GLY A 239 REMARK 465 GLU A 240 REMARK 465 ASN A 241 REMARK 465 LEU A 242 REMARK 465 TYR A 243 REMARK 465 PHE A 244 REMARK 465 GLN A 245 REMARK 465 SER A 246 REMARK 465 THR A 247 REMARK 465 LYS A 248 REMARK 465 LYS A 249 REMARK 465 SER A 250 REMARK 465 ALA A 251 REMARK 465 ALA A 252 REMARK 465 GLU A 253 REMARK 465 MET B 229 REMARK 465 GLY B 230 REMARK 465 SER B 231 REMARK 465 SER B 232 REMARK 465 HIS B 233 REMARK 465 HIS B 234 REMARK 465 HIS B 235 REMARK 465 HIS B 236 REMARK 465 HIS B 237 REMARK 465 HIS B 238 REMARK 465 GLY B 239 REMARK 465 GLU B 240 REMARK 465 ASN B 241 REMARK 465 MET C 229 REMARK 465 GLY C 230 REMARK 465 SER C 231 REMARK 465 SER C 232 REMARK 465 HIS C 233 REMARK 465 HIS C 234 REMARK 465 HIS C 235 REMARK 465 HIS C 236 REMARK 465 HIS C 237 REMARK 465 HIS C 238 REMARK 465 GLY C 239 REMARK 465 GLU C 240 REMARK 465 ASN C 241 REMARK 465 LEU C 242 REMARK 465 TYR C 243 REMARK 465 PHE C 244 REMARK 465 GLN C 245 REMARK 465 SER C 246 REMARK 465 THR C 247 REMARK 465 LYS C 248 REMARK 465 LYS C 249 REMARK 465 SER C 250 REMARK 465 ALA C 251 REMARK 465 ALA C 252 REMARK 465 GLU C 253 REMARK 465 MET D 229 REMARK 465 GLY D 230 REMARK 465 SER D 231 REMARK 465 SER D 232 REMARK 465 HIS D 233 REMARK 465 HIS D 234 REMARK 465 HIS D 235 REMARK 465 HIS D 236 REMARK 465 HIS D 237 REMARK 465 HIS D 238 REMARK 465 GLY D 239 REMARK 465 GLU D 240 REMARK 465 ASN D 241 REMARK 465 LEU D 242 REMARK 465 TYR D 243 REMARK 465 PHE D 244 REMARK 465 GLN D 245 REMARK 465 SER D 246 REMARK 465 THR D 247 REMARK 465 LYS D 248 REMARK 465 LYS D 249 REMARK 465 SER D 250 REMARK 465 ALA D 251 REMARK 465 ALA D 252 REMARK 465 GLU D 253 REMARK 465 ALA D 254 REMARK 465 SER D 255 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 262 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 MET A 322 CG - SD - CE ANGL. DEV. = -9.6 DEGREES REMARK 500 ARG B 262 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 319 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG C 262 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP C 288 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP C 288 CB - CG - OD2 ANGL. DEV. = -6.7 DEGREES REMARK 500 MET C 317 CG - SD - CE ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG C 319 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG D 259 NE - CZ - NH1 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG D 259 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG D 259 NE - CZ - NH2 ANGL. DEV. = 9.3 DEGREES REMARK 500 ARG D 262 NE - CZ - NH1 ANGL. DEV. = 3.0 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 TYR A 268 89.00 -150.20 REMARK 500 TYR B 268 82.25 -158.65 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 501 DISTANCE = 13.28 ANGSTROMS REMARK 525 HOH D 508 DISTANCE = 8.21 ANGSTROMS REMARK 525 HOH D 509 DISTANCE = 8.37 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP C 401 DBREF 7O35 A 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 7O35 B 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 7O35 C 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 7O35 D 247 364 UNP P0DTC9 NCAP_SARS2 247 364 SEQADV 7O35 MET A 229 UNP P0DTC9 INITIATING METHIONINE SEQADV 7O35 GLY A 230 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER A 231 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER A 232 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 233 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 234 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 235 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 236 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 237 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS A 238 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLY A 239 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLU A 240 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 ASN A 241 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 LEU A 242 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 TYR A 243 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 PHE A 244 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLN A 245 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER A 246 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 MET B 229 UNP P0DTC9 INITIATING METHIONINE SEQADV 7O35 GLY B 230 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER B 231 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER B 232 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 233 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 234 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 235 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 236 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 237 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS B 238 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLY B 239 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLU B 240 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 ASN B 241 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 LEU B 242 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 TYR B 243 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 PHE B 244 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLN B 245 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER B 246 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 MET C 229 UNP P0DTC9 INITIATING METHIONINE SEQADV 7O35 GLY C 230 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER C 231 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER C 232 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 233 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 234 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 235 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 236 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 237 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS C 238 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLY C 239 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLU C 240 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 ASN C 241 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 LEU C 242 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 TYR C 243 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 PHE C 244 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLN C 245 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER C 246 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 MET D 229 UNP P0DTC9 INITIATING METHIONINE SEQADV 7O35 GLY D 230 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER D 231 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER D 232 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 233 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 234 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 235 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 236 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 237 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 HIS D 238 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLY D 239 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLU D 240 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 ASN D 241 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 LEU D 242 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 TYR D 243 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 PHE D 244 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 GLN D 245 UNP P0DTC9 EXPRESSION TAG SEQADV 7O35 SER D 246 UNP P0DTC9 EXPRESSION TAG SEQRES 1 A 136 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLY GLU ASN SEQRES 2 A 136 LEU TYR PHE GLN SER THR LYS LYS SER ALA ALA GLU ALA SEQRES 3 A 136 SER LYS LYS PRO ARG GLN LYS ARG THR ALA THR LYS ALA SEQRES 4 A 136 TYR ASN VAL THR GLN ALA PHE GLY ARG ARG GLY PRO GLU SEQRES 5 A 136 GLN THR GLN GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG SEQRES 6 A 136 GLN GLY THR ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN SEQRES 7 A 136 PHE ALA PRO SER ALA SER ALA PHE PHE GLY MET SER ARG SEQRES 8 A 136 ILE GLY MET GLU VAL THR PRO SER GLY THR TRP LEU THR SEQRES 9 A 136 TYR THR GLY ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN SEQRES 10 A 136 PHE LYS ASP GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP SEQRES 11 A 136 ALA TYR LYS THR PHE PRO SEQRES 1 B 136 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLY GLU ASN SEQRES 2 B 136 LEU TYR PHE GLN SER THR LYS LYS SER ALA ALA GLU ALA SEQRES 3 B 136 SER LYS LYS PRO ARG GLN LYS ARG THR ALA THR LYS ALA SEQRES 4 B 136 TYR ASN VAL THR GLN ALA PHE GLY ARG ARG GLY PRO GLU SEQRES 5 B 136 GLN THR GLN GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG SEQRES 6 B 136 GLN GLY THR ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN SEQRES 7 B 136 PHE ALA PRO SER ALA SER ALA PHE PHE GLY MET SER ARG SEQRES 8 B 136 ILE GLY MET GLU VAL THR PRO SER GLY THR TRP LEU THR SEQRES 9 B 136 TYR THR GLY ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN SEQRES 10 B 136 PHE LYS ASP GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP SEQRES 11 B 136 ALA TYR LYS THR PHE PRO SEQRES 1 C 136 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLY GLU ASN SEQRES 2 C 136 LEU TYR PHE GLN SER THR LYS LYS SER ALA ALA GLU ALA SEQRES 3 C 136 SER LYS LYS PRO ARG GLN LYS ARG THR ALA THR LYS ALA SEQRES 4 C 136 TYR ASN VAL THR GLN ALA PHE GLY ARG ARG GLY PRO GLU SEQRES 5 C 136 GLN THR GLN GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG SEQRES 6 C 136 GLN GLY THR ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN SEQRES 7 C 136 PHE ALA PRO SER ALA SER ALA PHE PHE GLY MET SER ARG SEQRES 8 C 136 ILE GLY MET GLU VAL THR PRO SER GLY THR TRP LEU THR SEQRES 9 C 136 TYR THR GLY ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN SEQRES 10 C 136 PHE LYS ASP GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP SEQRES 11 C 136 ALA TYR LYS THR PHE PRO SEQRES 1 D 136 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLY GLU ASN SEQRES 2 D 136 LEU TYR PHE GLN SER THR LYS LYS SER ALA ALA GLU ALA SEQRES 3 D 136 SER LYS LYS PRO ARG GLN LYS ARG THR ALA THR LYS ALA SEQRES 4 D 136 TYR ASN VAL THR GLN ALA PHE GLY ARG ARG GLY PRO GLU SEQRES 5 D 136 GLN THR GLN GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG SEQRES 6 D 136 GLN GLY THR ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN SEQRES 7 D 136 PHE ALA PRO SER ALA SER ALA PHE PHE GLY MET SER ARG SEQRES 8 D 136 ILE GLY MET GLU VAL THR PRO SER GLY THR TRP LEU THR SEQRES 9 D 136 TYR THR GLY ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN SEQRES 10 D 136 PHE LYS ASP GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP SEQRES 11 D 136 ALA TYR LYS THR PHE PRO HET GTP C 401 32 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE FORMUL 5 GTP C10 H16 N5 O14 P3 FORMUL 6 HOH *442(H2 O) HELIX 1 AA1 PRO A 258 ARG A 262 5 5 HELIX 2 AA2 ASN A 269 GLY A 275 1 7 HELIX 3 AA3 ASP A 288 GLY A 295 1 8 HELIX 4 AA4 THR A 296 TYR A 298 5 3 HELIX 5 AA5 HIS A 300 GLN A 306 1 7 HELIX 6 AA6 SER A 310 SER A 318 1 9 HELIX 7 AA7 ASN A 345 ILE A 357 1 13 HELIX 8 AA8 ASP A 358 PHE A 363 5 6 HELIX 9 AA9 THR B 247 SER B 255 1 9 HELIX 10 AB1 LYS B 256 LYS B 257 5 2 HELIX 11 AB2 PRO B 258 ARG B 262 5 5 HELIX 12 AB3 ASN B 269 GLY B 275 1 7 HELIX 13 AB4 ASP B 288 GLY B 295 1 8 HELIX 14 AB5 THR B 296 TYR B 298 5 3 HELIX 15 AB6 HIS B 300 GLN B 306 1 7 HELIX 16 AB7 SER B 310 SER B 318 1 9 HELIX 17 AB8 ASN B 345 ILE B 357 1 13 HELIX 18 AB9 ASP B 358 PHE B 363 5 6 HELIX 19 AC1 PRO C 258 ARG C 262 5 5 HELIX 20 AC2 ASN C 269 GLY C 275 1 7 HELIX 21 AC3 ASP C 288 GLY C 295 1 8 HELIX 22 AC4 THR C 296 TYR C 298 5 3 HELIX 23 AC5 HIS C 300 GLN C 306 1 7 HELIX 24 AC6 SER C 310 SER C 318 1 9 HELIX 25 AC7 ASN C 345 ILE C 357 1 13 HELIX 26 AC8 ASP C 358 PHE C 363 5 6 HELIX 27 AC9 PRO D 258 ARG D 262 5 5 HELIX 28 AD1 ASN D 269 GLY D 275 1 7 HELIX 29 AD2 ASP D 288 GLY D 295 1 8 HELIX 30 AD3 THR D 296 TYR D 298 5 3 HELIX 31 AD4 HIS D 300 GLN D 306 1 7 HELIX 32 AD5 SER D 310 SER D 318 1 9 HELIX 33 AD6 ASN D 345 ILE D 357 1 13 HELIX 34 AD7 ASP D 358 PHE D 363 5 6 SHEET 1 AA1 4 ARG A 319 THR A 325 0 SHEET 2 AA1 4 GLY A 328 LYS A 338 -1 O THR A 334 N ARG A 319 SHEET 3 AA1 4 GLY B 328 LYS B 338 -1 O LEU B 331 N ILE A 337 SHEET 4 AA1 4 ARG B 319 THR B 325 -1 N ARG B 319 O THR B 334 SHEET 1 AA2 4 ARG C 319 THR C 325 0 SHEET 2 AA2 4 GLY C 328 LYS C 338 -1 O GLY C 328 N THR C 325 SHEET 3 AA2 4 GLY D 328 LYS D 338 -1 O ILE D 337 N LEU C 331 SHEET 4 AA2 4 ARG D 319 THR D 325 -1 N ARG D 319 O THR D 334 SITE 1 AC1 14 ARG C 259 ARG C 262 THR C 282 TRP C 330 SITE 2 AC1 14 HOH C 516 HOH C 518 HOH C 526 HOH C 554 SITE 3 AC1 14 HOH C 598 MET D 317 ALA D 336 ILE D 337 SITE 4 AC1 14 LYS D 338 HOH D 455 CRYST1 43.773 92.719 68.728 90.00 90.01 90.00 P 1 21 1 8 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 0.022845 0.000000 0.000002 0.00000 SCALE2 0.000000 0.010785 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014550 0.00000