HEADER VIRAL PROTEIN 05-JUL-24 9IN1 TITLE CRYSTAL STRUCTURE OF C-TERMINAL DOMAIN OF NUCLEOCAPSID PROTEIN FROM TITLE 2 SARS-COV-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOPROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: N,NUCLEOCAPSID PROTEIN,NC,PROTEIN N; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_TAXID: 2697049; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS SARS-COV-2, NUCLEOCAPSID PROTEIN, RNA BINDING C-TERMINAL DOMAIN, KEYWDS 2 DRUGS, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.DHAKA,J.K.MAHTO,S.TOMAR,P.KUMAR REVDAT 1 02-APR-25 9IN1 0 JRNL AUTH P.DHAKA,J.K.MAHTO,A.SINGH,P.KUMAR,S.TOMAR JRNL TITL STRUCTURAL INSIGHTS INTO THE RNA BINDING INHIBITORS OF THE JRNL TITL 2 C-TERMINAL DOMAIN OF THE SARS-COV-2 NUCLEOCAPSID. JRNL REF J.STRUCT.BIOL. V. 217 08197 2025 JRNL REFN ESSN 1095-8657 JRNL PMID 40113149 JRNL DOI 10.1016/J.JSB.2025.108197 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 3 NUMBER OF REFLECTIONS : 80831 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) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 4160 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5436 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 306 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3549 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 831 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : -0.90000 REMARK 3 B33 (A**2) : 0.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.35000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.066 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.059 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.129 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3880 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3664 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5262 ; 1.963 ; 1.836 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8472 ; 0.696 ; 1.799 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 492 ; 6.556 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 26 ;10.018 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 680 ;12.830 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 542 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4700 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 960 ; 0.001 ; 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): 1885 ; 3.441 ; 0.952 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1885 ; 3.424 ; 0.951 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2368 ; 5.325 ; 1.699 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2369 ; 5.330 ; 1.700 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1995 ; 4.517 ; 1.154 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1996 ; 4.517 ; 1.155 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2882 ; 6.686 ; 2.002 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4923 ;17.251 ;16.940 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4643 ;14.282 ;12.450 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 7544 ; 3.650 ; 3.000 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 REMARK 4 REMARK 4 9IN1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-JUL-24. REMARK 100 THE DEPOSITION ID IS D_1300047629. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : RIGAKU HYPIX-6000HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSALISPRO REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85007 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 27.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 6YUN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG4000, 0.2 M LITHIUM SULFATE, 50 REMARK 280 MM TRIS PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 21.74300 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: 5230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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: 5230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 245 REMARK 465 GLY 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 ALA A 254 REMARK 465 SER A 255 REMARK 465 LYS A 256 REMARK 465 MET B 245 REMARK 465 GLY B 246 REMARK 465 THR B 247 REMARK 465 LYS B 248 REMARK 465 LYS B 249 REMARK 465 SER B 250 REMARK 465 ALA B 251 REMARK 465 ALA B 252 REMARK 465 GLU B 253 REMARK 465 ALA B 254 REMARK 465 MET C 245 REMARK 465 GLY C 246 REMARK 465 THR C 247 REMARK 465 LYS C 248 REMARK 465 MET D 245 REMARK 465 GLY 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 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 276 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 HIS A 300 CB - CG - CD2 ANGL. DEV. = 9.5 DEGREES REMARK 500 HIS A 300 CB - CG - ND1 ANGL. DEV. = -10.6 DEGREES REMARK 500 ARG B 276 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG B 293 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 MET B 322 CG - SD - CE ANGL. DEV. = -10.7 DEGREES REMARK 500 ARG C 259 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG C 259 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG C 276 CD - NE - CZ ANGL. DEV. = 8.9 DEGREES REMARK 500 ARG C 276 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG D 259 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG D 259 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG D 276 NE - CZ - NH2 ANGL. DEV. = 3.2 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 87.44 -151.96 REMARK 500 TYR B 268 86.64 -156.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 276 0.12 SIDE CHAIN REMARK 500 ARG B 262 0.09 SIDE CHAIN REMARK 500 ARG C 262 0.08 SIDE CHAIN REMARK 500 ARG C 276 0.15 SIDE CHAIN 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 703 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH B 721 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH B 722 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B 723 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH C 721 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH C 722 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH C 723 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH C 724 DISTANCE = 6.51 ANGSTROMS REMARK 525 HOH C 725 DISTANCE = 6.77 ANGSTROMS REMARK 525 HOH D 676 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH D 677 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH D 678 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH D 679 DISTANCE = 6.79 ANGSTROMS REMARK 525 HOH D 680 DISTANCE = 7.62 ANGSTROMS DBREF 9IN1 A 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 9IN1 B 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 9IN1 C 247 364 UNP P0DTC9 NCAP_SARS2 247 364 DBREF 9IN1 D 247 364 UNP P0DTC9 NCAP_SARS2 247 364 SEQADV 9IN1 MET A 245 UNP P0DTC9 INITIATING METHIONINE SEQADV 9IN1 GLY A 246 UNP P0DTC9 EXPRESSION TAG SEQADV 9IN1 MET B 245 UNP P0DTC9 INITIATING METHIONINE SEQADV 9IN1 GLY B 246 UNP P0DTC9 EXPRESSION TAG SEQADV 9IN1 MET C 245 UNP P0DTC9 INITIATING METHIONINE SEQADV 9IN1 GLY C 246 UNP P0DTC9 EXPRESSION TAG SEQADV 9IN1 MET D 245 UNP P0DTC9 INITIATING METHIONINE SEQADV 9IN1 GLY D 246 UNP P0DTC9 EXPRESSION TAG SEQRES 1 A 120 MET GLY THR LYS LYS SER ALA ALA GLU ALA SER LYS LYS SEQRES 2 A 120 PRO ARG GLN LYS ARG THR ALA THR LYS ALA TYR ASN VAL SEQRES 3 A 120 THR GLN ALA PHE GLY ARG ARG GLY PRO GLU GLN THR GLN SEQRES 4 A 120 GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG GLN GLY THR SEQRES 5 A 120 ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN PHE ALA PRO SEQRES 6 A 120 SER ALA SER ALA PHE PHE GLY MET SER ARG ILE GLY MET SEQRES 7 A 120 GLU VAL THR PRO SER GLY THR TRP LEU THR TYR THR GLY SEQRES 8 A 120 ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN PHE LYS ASP SEQRES 9 A 120 GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP ALA TYR LYS SEQRES 10 A 120 THR PHE PRO SEQRES 1 B 120 MET GLY THR LYS LYS SER ALA ALA GLU ALA SER LYS LYS SEQRES 2 B 120 PRO ARG GLN LYS ARG THR ALA THR LYS ALA TYR ASN VAL SEQRES 3 B 120 THR GLN ALA PHE GLY ARG ARG GLY PRO GLU GLN THR GLN SEQRES 4 B 120 GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG GLN GLY THR SEQRES 5 B 120 ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN PHE ALA PRO SEQRES 6 B 120 SER ALA SER ALA PHE PHE GLY MET SER ARG ILE GLY MET SEQRES 7 B 120 GLU VAL THR PRO SER GLY THR TRP LEU THR TYR THR GLY SEQRES 8 B 120 ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN PHE LYS ASP SEQRES 9 B 120 GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP ALA TYR LYS SEQRES 10 B 120 THR PHE PRO SEQRES 1 C 120 MET GLY THR LYS LYS SER ALA ALA GLU ALA SER LYS LYS SEQRES 2 C 120 PRO ARG GLN LYS ARG THR ALA THR LYS ALA TYR ASN VAL SEQRES 3 C 120 THR GLN ALA PHE GLY ARG ARG GLY PRO GLU GLN THR GLN SEQRES 4 C 120 GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG GLN GLY THR SEQRES 5 C 120 ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN PHE ALA PRO SEQRES 6 C 120 SER ALA SER ALA PHE PHE GLY MET SER ARG ILE GLY MET SEQRES 7 C 120 GLU VAL THR PRO SER GLY THR TRP LEU THR TYR THR GLY SEQRES 8 C 120 ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN PHE LYS ASP SEQRES 9 C 120 GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP ALA TYR LYS SEQRES 10 C 120 THR PHE PRO SEQRES 1 D 120 MET GLY THR LYS LYS SER ALA ALA GLU ALA SER LYS LYS SEQRES 2 D 120 PRO ARG GLN LYS ARG THR ALA THR LYS ALA TYR ASN VAL SEQRES 3 D 120 THR GLN ALA PHE GLY ARG ARG GLY PRO GLU GLN THR GLN SEQRES 4 D 120 GLY ASN PHE GLY ASP GLN GLU LEU ILE ARG GLN GLY THR SEQRES 5 D 120 ASP TYR LYS HIS TRP PRO GLN ILE ALA GLN PHE ALA PRO SEQRES 6 D 120 SER ALA SER ALA PHE PHE GLY MET SER ARG ILE GLY MET SEQRES 7 D 120 GLU VAL THR PRO SER GLY THR TRP LEU THR TYR THR GLY SEQRES 8 D 120 ALA ILE LYS LEU ASP ASP LYS ASP PRO ASN PHE LYS ASP SEQRES 9 D 120 GLN VAL ILE LEU LEU ASN LYS HIS ILE ASP ALA TYR LYS SEQRES 10 D 120 THR PHE PRO FORMUL 5 HOH *831(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 PRO B 258 ARG B 262 5 5 HELIX 10 AB1 ASN B 269 GLY B 275 1 7 HELIX 11 AB2 ASP B 288 GLY B 295 1 8 HELIX 12 AB3 THR B 296 TYR B 298 5 3 HELIX 13 AB4 HIS B 300 GLN B 306 1 7 HELIX 14 AB5 SER B 310 SER B 318 1 9 HELIX 15 AB6 ASN B 345 ILE B 357 1 13 HELIX 16 AB7 ASP B 358 PHE B 363 5 6 HELIX 17 AB8 SER C 250 SER C 255 1 6 HELIX 18 AB9 LYS C 256 LYS C 257 5 2 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 ILE B 337 N LEU A 331 SHEET 4 AA1 4 ARG B 319 THR B 325 -1 N THR B 325 O GLY B 328 SHEET 1 AA2 4 ARG C 319 THR C 325 0 SHEET 2 AA2 4 GLY C 328 LYS C 338 -1 O TRP C 330 N GLU C 323 SHEET 3 AA2 4 GLY D 328 LYS D 338 -1 O LEU D 331 N ILE C 337 SHEET 4 AA2 4 ARG D 319 THR D 325 -1 N THR D 325 O GLY D 328 CRYST1 71.045 43.486 74.785 90.00 94.45 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 0.014076 0.000000 0.001095 0.00000 SCALE2 0.000000 0.022996 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013412 0.00000