HEADER VIRAL PROTEIN 25-NOV-22 8BSF TITLE CRYSTAL STRUCTURE OF SARS-COV-2 RECEPTOR BINDING DOMAIN (RBD-BETA TITLE 2 VARIANT) IN COMPLEX WITH 3D2 FAB COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: BETA VARIANT WITH THE FOLLOWING MUTATIONS, K417N, COMPND 6 E484K, N501Y; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 3D2 FAB HEAVY CHAIN; COMPND 9 CHAIN: H; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 3D2 FAB LIGHT CHAIN; COMPND 13 CHAIN: L; COMPND 14 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 GENE: S, 2; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 13 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM_CELL_LINE: HEK 293F; SOURCE 16 MOL_ID: 3; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606; SOURCE 20 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 21 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 22 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS ANTIBODY, VIRUS, COMPLEX, SARS-COV-2, VIRAL PROTEIN COMPLEX, VIRAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.WELIN,Y.R.KIMBUNG,D.FOCHT,T.PISITKUN REVDAT 2 18-OCT-23 8BSF 1 SOURCE JRNL REVDAT 1 17-MAY-23 8BSF 0 JRNL AUTH C.BOONKRAI,T.S.COTRONE,W.CHAISURIYONG,T.TANTAWICHIEN, JRNL AUTH 2 U.THISYAKORN,S.FERNANDEZ,T.HUNSAWONG,M.REED, JRNL AUTH 3 T.WONGTANGPRASERT,T.AUDOMSUN,T.PHAKHAM,C.ATTAKITBANCHA, JRNL AUTH 4 P.SAELAO,D.FOCHT,R.KIMBUNG,M.WELIN,A.A.MALIK,T.PISITKUN, JRNL AUTH 5 N.SRISAWAT JRNL TITL EFFICACY OF THE COMBINATION OF MONOCLONAL ANTIBODIES AGAINST JRNL TITL 2 THE SARS-COV-2 BETA AND DELTA VARIANTS. JRNL REF PLOS ONE V. 18 84173 2023 JRNL REFN ESSN 1932-6203 JRNL PMID 37141227 JRNL DOI 10.1371/JOURNAL.PONE.0284173 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 42690 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2189 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3135 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 148 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4606 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 123 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.44000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -1.60000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.199 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.173 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.148 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.124 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4795 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4340 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6539 ; 1.614 ; 1.650 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10055 ; 1.241 ; 1.579 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 603 ; 8.147 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 202 ;35.049 ;23.218 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 715 ;15.941 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;19.888 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 627 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5439 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1085 ; 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): 2427 ; 4.715 ; 5.532 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2426 ; 4.709 ; 5.529 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3025 ; 6.711 ; 8.249 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3026 ; 6.713 ; 8.251 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2368 ; 5.096 ; 5.990 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2369 ; 5.096 ; 5.990 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3515 ; 7.385 ; 8.783 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4933 ; 9.362 ;61.539 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4934 ; 9.365 ;61.547 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 REMARK 4 REMARK 4 8BSF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1292126994. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX IV REMARK 200 BEAMLINE : BIOMAX REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44882 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 48.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 1.56800 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.04 M POTASSIUM DIHYDROGEN PHOSPHATE REMARK 280 18 % PEG 8000 20 % GLYCEROL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.34650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.59850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.34650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.59850 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L 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 ARG A 319 REMARK 465 VAL A 320 REMARK 465 GLN A 321 REMARK 465 PRO A 322 REMARK 465 THR A 323 REMARK 465 GLU A 324 REMARK 465 SER A 325 REMARK 465 ILE A 326 REMARK 465 VAL A 327 REMARK 465 ARG A 328 REMARK 465 PHE A 329 REMARK 465 PRO A 330 REMARK 465 ASN A 331 REMARK 465 ILE A 332 REMARK 465 THR A 333 REMARK 465 ASN A 334 REMARK 465 LEU A 335 REMARK 465 VAL A 367 REMARK 465 LEU A 368 REMARK 465 TYR A 369 REMARK 465 ASN A 370 REMARK 465 SER A 371 REMARK 465 THR A 385 REMARK 465 LYS A 386 REMARK 465 LEU A 387 REMARK 465 ASN A 388 REMARK 465 ASP A 389 REMARK 465 LYS A 484 REMARK 465 GLY A 485 REMARK 465 PHE A 486 REMARK 465 LEU A 518 REMARK 465 HIS A 519 REMARK 465 ALA A 520 REMARK 465 PRO A 521 REMARK 465 ALA A 522 REMARK 465 THR A 523 REMARK 465 PRO A 527 REMARK 465 LYS A 528 REMARK 465 LYS A 529 REMARK 465 SER A 530 REMARK 465 THR A 531 REMARK 465 ASN A 532 REMARK 465 LEU A 533 REMARK 465 VAL A 534 REMARK 465 LYS A 535 REMARK 465 ASN A 536 REMARK 465 LYS A 537 REMARK 465 CYS A 538 REMARK 465 VAL A 539 REMARK 465 ASN A 540 REMARK 465 PHE A 541 REMARK 465 SER A 542 REMARK 465 GLY A 543 REMARK 465 HIS A 544 REMARK 465 HIS A 545 REMARK 465 HIS A 546 REMARK 465 HIS A 547 REMARK 465 HIS A 548 REMARK 465 HIS A 549 REMARK 465 SER H 140 REMARK 465 LYS H 141 REMARK 465 SER H 142 REMARK 465 THR H 143 REMARK 465 SER H 144 REMARK 465 GLY H 145 REMARK 465 CYS H 228 REMARK 465 ASP H 229 REMARK 465 LYS H 230 REMARK 465 THR H 231 REMARK 465 GLN L 1 REMARK 465 GLU L 214 REMARK 465 CYS L 215 REMARK 465 SER L 216 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NZ LYS H 155 O HOH H 401 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 359 -70.17 -125.66 REMARK 500 CYS A 361 -167.99 173.11 REMARK 500 ALA A 363 -158.90 -85.84 REMARK 500 ASP A 364 -158.71 -170.57 REMARK 500 ASN A 422 -57.28 -130.76 REMARK 500 ASN A 481 41.13 -87.81 REMARK 500 ASP H 55 14.18 -141.47 REMARK 500 ASP H 113 -71.94 -121.55 REMARK 500 HIS H 212 78.61 -117.82 REMARK 500 ASN L 28 -95.21 -119.21 REMARK 500 ASN L 52 -43.91 68.50 REMARK 500 ASN L 53 12.64 -153.65 REMARK 500 ASP L 155 -105.06 60.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8BSE RELATED DB: PDB DBREF 8BSF A 319 541 UNP P0DTC2 SPIKE_SARS2 319 541 DBREF 8BSF H 1 231 PDB 8BSF 8BSF 1 231 DBREF 8BSF L 1 216 PDB 8BSF 8BSF 1 216 SEQADV 8BSF ASN A 417 UNP P0DTC2 LYS 417 ENGINEERED MUTATION SEQADV 8BSF LYS A 484 UNP P0DTC2 GLU 484 ENGINEERED MUTATION SEQADV 8BSF TYR A 501 UNP P0DTC2 ASN 501 ENGINEERED MUTATION SEQADV 8BSF SER A 542 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF GLY A 543 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 544 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 545 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 546 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 547 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 548 UNP P0DTC2 EXPRESSION TAG SEQADV 8BSF HIS A 549 UNP P0DTC2 EXPRESSION TAG SEQRES 1 A 231 ARG VAL GLN PRO THR GLU SER ILE VAL ARG PHE PRO ASN SEQRES 2 A 231 ILE THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA SEQRES 3 A 231 THR ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG SEQRES 4 A 231 ILE SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SEQRES 5 A 231 SER ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER SEQRES 6 A 231 PRO THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR SEQRES 7 A 231 ALA ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN SEQRES 8 A 231 ILE ALA PRO GLY GLN THR GLY ASN ILE ALA ASP TYR ASN SEQRES 9 A 231 TYR LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA SEQRES 10 A 231 TRP ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN SEQRES 11 A 231 TYR ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU SEQRES 12 A 231 LYS PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN SEQRES 13 A 231 ALA GLY SER THR PRO CYS ASN GLY VAL LYS GLY PHE ASN SEQRES 14 A 231 CYS TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR SEQRES 15 A 231 TYR GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SEQRES 16 A 231 SER PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY SEQRES 17 A 231 PRO LYS LYS SER THR ASN LEU VAL LYS ASN LYS CYS VAL SEQRES 18 A 231 ASN PHE SER GLY HIS HIS HIS HIS HIS HIS SEQRES 1 H 231 GLU VAL GLN LEU VAL GLN SER GLY ALA GLU VAL LYS LYS SEQRES 2 H 231 PRO GLY ASP SER LEU LYS ILE SER CYS LYS GLY SER GLY SEQRES 3 H 231 TYR SER PHE ALA ASN TYR TRP ILE GLY TRP VAL ARG GLN SEQRES 4 H 231 LYS PRO GLY LYS GLY LEU GLU TRP MET GLY ILE ILE TYR SEQRES 5 H 231 PRO GLY ASP SER ASP THR ARG TYR SER PRO SER SER LEU SEQRES 6 H 231 GLY GLN VAL SER ILE SER VAL ASP LYS SER ILE SER THR SEQRES 7 H 231 ALA TYR LEU GLN TRP SER SER LEU LYS ALA SER ASP THR SEQRES 8 H 231 ALA MET TYR TYR CYS ALA ARG HIS PRO ILE HIS GLY TYR SEQRES 9 H 231 GLY SER GLY SER LEU TYR ASN PRO ASP TYR TRP GLY GLN SEQRES 10 H 231 GLY THR LEU VAL THR VAL SER SER ALA SER THR LYS GLY SEQRES 11 H 231 PRO SER VAL PHE PRO LEU ALA PRO SER SER LYS SER THR SEQRES 12 H 231 SER GLY GLY THR ALA ALA LEU GLY CYS LEU VAL LYS ASP SEQRES 13 H 231 TYR PHE PRO GLU PRO VAL THR VAL SER TRP ASN SER GLY SEQRES 14 H 231 ALA LEU THR SER GLY VAL HIS THR PHE PRO ALA VAL LEU SEQRES 15 H 231 GLN SER SER GLY LEU TYR SER LEU SER SER VAL VAL THR SEQRES 16 H 231 VAL PRO SER SER SER LEU GLY THR GLN THR TYR ILE CYS SEQRES 17 H 231 ASN VAL ASN HIS LYS PRO SER ASN THR LYS VAL ASP LYS SEQRES 18 H 231 LYS VAL GLU PRO LYS SER CYS ASP LYS THR SEQRES 1 L 216 GLN SER VAL LEU THR GLN PRO PRO SER VAL SER ALA ALA SEQRES 2 L 216 PRO GLY GLN LYS VAL THR ILE SER CYS SER GLY SER ASN SEQRES 3 L 216 SER ASN ILE GLY ILE ASN TYR VAL SER TRP TYR GLN GLN SEQRES 4 L 216 LEU PRO GLU THR ALA PRO LYS LEU LEU ILE TYR GLU ASN SEQRES 5 L 216 ASN GLN ARG PRO SER GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 216 SER LYS SER GLY THR SER ALA THR LEU GLY ILE THR GLY SEQRES 7 L 216 LEU GLN THR GLY ASP GLU ALA ASP TYR TYR CYS GLY THR SEQRES 8 L 216 TRP ASP THR SER LEU GLY ALA TYR VAL PHE GLY THR GLY SEQRES 9 L 216 THR LYS VAL THR VAL LEU GLY GLN PRO LYS ALA ALA PRO SEQRES 10 L 216 SER VAL THR LEU PHE PRO PRO SER SER GLU GLU LEU GLN SEQRES 11 L 216 ALA ASN LYS ALA THR LEU VAL CYS LEU ILE SER ASP PHE SEQRES 12 L 216 TYR PRO GLY ALA VAL THR VAL ALA TRP LYS ALA ASP SER SEQRES 13 L 216 SER PRO VAL LYS ALA GLY VAL GLU THR THR THR PRO SER SEQRES 14 L 216 LYS GLN SER ASN ASN LYS TYR ALA ALA SER SER TYR LEU SEQRES 15 L 216 SER LEU THR PRO GLU GLN TRP LYS SER HIS ARG SER TYR SEQRES 16 L 216 SER CYS GLN VAL THR HIS GLU GLY SER THR VAL GLU LYS SEQRES 17 L 216 THR VAL ALA PRO THR GLU CYS SER HET NAG A 601 14 HET GOL H 301 6 HET GOL L 301 6 HET GOL L 302 6 HET GOL L 303 6 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GOL GLYCEROL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 NAG C8 H15 N O6 FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *123(H2 O) HELIX 1 AA1 PHE A 338 ASN A 343 1 6 HELIX 2 AA2 SER A 349 TRP A 353 5 5 HELIX 3 AA3 ASP A 405 ILE A 410 5 6 HELIX 4 AA4 GLY A 416 ASN A 422 1 7 HELIX 5 AA5 SER A 438 SER A 443 1 6 HELIX 6 AA6 GLY A 502 TYR A 505 5 4 HELIX 7 AA7 SER H 28 TYR H 32 5 5 HELIX 8 AA8 LYS H 74 ILE H 76 5 3 HELIX 9 AA9 LYS H 87 THR H 91 5 5 HELIX 10 AB1 TYR H 104 SER H 108 5 5 HELIX 11 AB2 SER H 168 ALA H 170 5 3 HELIX 12 AB3 SER H 199 GLY H 202 5 4 HELIX 13 AB4 LYS H 213 ASN H 216 5 4 HELIX 14 AB5 GLN L 80 GLU L 84 5 5 HELIX 15 AB6 SER L 125 ALA L 131 1 7 HELIX 16 AB7 THR L 185 SER L 191 1 7 SHEET 1 AA1 5 ASN A 354 ILE A 358 0 SHEET 2 AA1 5 ASN A 394 ARG A 403 -1 O VAL A 395 N ILE A 358 SHEET 3 AA1 5 PRO A 507 GLU A 516 -1 O VAL A 512 N ASP A 398 SHEET 4 AA1 5 GLY A 431 ASN A 437 -1 N ILE A 434 O VAL A 511 SHEET 5 AA1 5 THR A 376 TYR A 380 -1 N LYS A 378 O VAL A 433 SHEET 1 AA2 2 LEU A 452 ARG A 454 0 SHEET 2 AA2 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AA3 2 TYR A 473 GLN A 474 0 SHEET 2 AA3 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SHEET 1 AA4 4 GLN H 3 GLN H 6 0 SHEET 2 AA4 4 LEU H 18 SER H 25 -1 O LYS H 23 N VAL H 5 SHEET 3 AA4 4 THR H 78 TRP H 83 -1 O LEU H 81 N ILE H 20 SHEET 4 AA4 4 SER H 69 ASP H 73 -1 N SER H 71 O TYR H 80 SHEET 1 AA5 6 GLU H 10 LYS H 12 0 SHEET 2 AA5 6 THR H 119 VAL H 123 1 O LEU H 120 N GLU H 10 SHEET 3 AA5 6 ALA H 92 HIS H 99 -1 N ALA H 92 O VAL H 121 SHEET 4 AA5 6 TRP H 33 GLN H 39 -1 N GLN H 39 O MET H 93 SHEET 5 AA5 6 GLU H 46 ILE H 51 -1 O ILE H 51 N ILE H 34 SHEET 6 AA5 6 THR H 58 TYR H 60 -1 O ARG H 59 N ILE H 50 SHEET 1 AA6 2 ILE H 101 HIS H 102 0 SHEET 2 AA6 2 LEU H 109 TYR H 110 -1 O LEU H 109 N HIS H 102 SHEET 1 AA7 4 SER H 132 LEU H 136 0 SHEET 2 AA7 4 THR H 147 TYR H 157 -1 O LYS H 155 N SER H 132 SHEET 3 AA7 4 TYR H 188 PRO H 197 -1 O VAL H 194 N LEU H 150 SHEET 4 AA7 4 HIS H 176 THR H 177 -1 N HIS H 176 O VAL H 193 SHEET 1 AA8 4 SER H 132 LEU H 136 0 SHEET 2 AA8 4 THR H 147 TYR H 157 -1 O LYS H 155 N SER H 132 SHEET 3 AA8 4 TYR H 188 PRO H 197 -1 O VAL H 194 N LEU H 150 SHEET 4 AA8 4 VAL H 181 LEU H 182 -1 N VAL H 181 O SER H 189 SHEET 1 AA9 3 THR H 163 TRP H 166 0 SHEET 2 AA9 3 ILE H 207 HIS H 212 -1 O ASN H 211 N THR H 163 SHEET 3 AA9 3 THR H 217 LYS H 222 -1 O VAL H 219 N VAL H 210 SHEET 1 AB1 5 SER L 9 ALA L 12 0 SHEET 2 AB1 5 THR L 105 VAL L 109 1 O LYS L 106 N VAL L 10 SHEET 3 AB1 5 ALA L 85 ASP L 93 -1 N ALA L 85 O VAL L 107 SHEET 4 AB1 5 SER L 35 GLN L 39 -1 N GLN L 39 O ASP L 86 SHEET 5 AB1 5 LYS L 46 ILE L 49 -1 O LEU L 48 N TRP L 36 SHEET 1 AB2 4 SER L 9 ALA L 12 0 SHEET 2 AB2 4 THR L 105 VAL L 109 1 O LYS L 106 N VAL L 10 SHEET 3 AB2 4 ALA L 85 ASP L 93 -1 N ALA L 85 O VAL L 107 SHEET 4 AB2 4 ALA L 98 PHE L 101 -1 O VAL L 100 N THR L 91 SHEET 1 AB3 3 VAL L 18 SER L 23 0 SHEET 2 AB3 3 SER L 71 ILE L 76 -1 O ALA L 72 N CYS L 22 SHEET 3 AB3 3 PHE L 63 SER L 68 -1 N SER L 66 O THR L 73 SHEET 1 AB4 4 SER L 118 PHE L 122 0 SHEET 2 AB4 4 ALA L 134 PHE L 143 -1 O LEU L 139 N THR L 120 SHEET 3 AB4 4 TYR L 176 LEU L 184 -1 O SER L 180 N CYS L 138 SHEET 4 AB4 4 VAL L 163 THR L 165 -1 N GLU L 164 O TYR L 181 SHEET 1 AB5 4 SER L 118 PHE L 122 0 SHEET 2 AB5 4 ALA L 134 PHE L 143 -1 O LEU L 139 N THR L 120 SHEET 3 AB5 4 TYR L 176 LEU L 184 -1 O SER L 180 N CYS L 138 SHEET 4 AB5 4 SER L 169 LYS L 170 -1 N SER L 169 O ALA L 177 SHEET 1 AB6 4 SER L 157 VAL L 159 0 SHEET 2 AB6 4 THR L 149 ALA L 154 -1 N ALA L 154 O SER L 157 SHEET 3 AB6 4 TYR L 195 HIS L 201 -1 O GLN L 198 N ALA L 151 SHEET 4 AB6 4 SER L 204 VAL L 210 -1 O SER L 204 N HIS L 201 SSBOND 1 CYS A 336 CYS A 361 1555 1555 2.05 SSBOND 2 CYS A 379 CYS A 432 1555 1555 2.06 SSBOND 3 CYS A 391 CYS A 525 1555 1555 2.05 SSBOND 4 CYS A 480 CYS A 488 1555 1555 2.05 SSBOND 5 CYS H 22 CYS H 96 1555 1555 2.09 SSBOND 6 CYS H 152 CYS H 208 1555 1555 2.04 SSBOND 7 CYS L 22 CYS L 89 1555 1555 2.09 SSBOND 8 CYS L 138 CYS L 197 1555 1555 2.01 LINK ND2 ASN A 343 C1 NAG A 601 1555 1555 1.48 CISPEP 1 PHE H 158 PRO H 159 0 -9.04 CISPEP 2 GLU H 160 PRO H 161 0 -4.34 CISPEP 3 TYR L 144 PRO L 145 0 0.15 CRYST1 104.693 71.197 121.245 90.00 90.04 90.00 C 1 2 1 4 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 0.009552 0.000000 0.000007 0.00000 SCALE2 0.000000 0.014046 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008248 0.00000