HEADER IMMUNE SYSTEM 14-AUG-21 7RTR TITLE YLQ-SG3 TCR IN COMPLEX WITH SARS-COV-2 SPIKE-DERIVED PEPTIDE S269-277 TITLE 2 (YLQPRTFLL) PRESENTED BY HLA-A*02:01 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS I ANTIGEN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN,HLA CLASS I COMPND 5 HISTOCOMPATIBILITY ANTIGEN A ALPHA CHAIN,A ALPHA CHAIN,MHC CLASS I COMPND 6 ANTIGEN,MHC CLASS I PROTEIN,MHC CLASS I PROTEIN (HLA-A); COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: SPIKE PROTEIN S1; COMPND 14 CHAIN: C; COMPND 15 FRAGMENT: EPITOPE YLQPRTFLL (UNP RESIDUES 269-277); COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: YLQ-SG3 TCR ALPHA CHAIN (TRAV12-2); COMPND 19 CHAIN: D; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 5; COMPND 22 MOLECULE: YLQ-SG3 TCR BETA CHAIN (TRBV7-9); COMPND 23 CHAIN: E; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HLA-A, HLA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: B2M, CDABP0092, HDCMA22P; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 18 2; SOURCE 19 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 20 ORGANISM_TAXID: 2697049; SOURCE 21 MOL_ID: 4; SOURCE 22 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 26 MOL_ID: 5; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_TAXID: 9606; SOURCE 29 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 30 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS HUMAN LEUKOCYTE ANTIGEN, MAJOR HISTOCOMPATIBILITY COMPLEX, HLA-A2, KEYWDS 2 HLA-A*02:01, YLQPRTFLL, T CELL RECEPTOR, TCR, TCRPMHC, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR C.SZETO,S.GRAS REVDAT 3 18-OCT-23 7RTR 1 REMARK REVDAT 2 03-NOV-21 7RTR 1 JRNL REVDAT 1 13-OCT-21 7RTR 0 JRNL AUTH C.SZETO,A.T.NGUYEN,C.A.LOBOS,D.S.M.CHATZILEONTIADOU, JRNL AUTH 2 D.JAYASINGHE,E.J.GRANT,A.RIBOLDI-TUNNICLIFFE,C.SMITH,S.GRAS JRNL TITL MOLECULAR BASIS OF A DOMINANT SARS-COV-2 SPIKE-DERIVED JRNL TITL 2 EPITOPE PRESENTED BY HLA-A*02:01 RECOGNISED BY A PUBLIC TCR. JRNL REF CELLS V. 10 2021 JRNL REFN ESSN 2073-4409 JRNL PMID 34685626 JRNL DOI 10.3390/CELLS10102646 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 31693 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.750 REMARK 3 FREE R VALUE TEST SET COUNT : 1507 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.62 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 634 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2331 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 606 REMARK 3 BIN R VALUE (WORKING SET) : 0.2314 REMARK 3 BIN FREE R VALUE : 0.2736 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.42 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 28 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6432 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 47 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 22.99150 REMARK 3 B22 (A**2) : -17.07850 REMARK 3 B33 (A**2) : -5.91300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 6.00880 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.330 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.517 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.271 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.566 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.279 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.890 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.857 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6801 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 9282 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2317 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 1197 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6801 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 1 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 873 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 7312 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.18 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.54 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.86 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7RTR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-AUG-21. REMARK 100 THE DEPOSITION ID IS D_1000258837. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.954 REMARK 200 MONOCHROMATOR : NULL 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 : 31710 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 48.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.14700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.94400 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: 3GSO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.05 M ZINC ACETATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 112.67800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.81100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 112.67800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.81100 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 -23 REMARK 465 ALA A -22 REMARK 465 VAL A -21 REMARK 465 MET A -20 REMARK 465 ALA A -19 REMARK 465 PRO A -18 REMARK 465 ARG A -17 REMARK 465 THR A -16 REMARK 465 LEU A -15 REMARK 465 VAL A -14 REMARK 465 LEU A -13 REMARK 465 LEU A -12 REMARK 465 LEU A -11 REMARK 465 SER A -10 REMARK 465 GLY A -9 REMARK 465 ALA A -8 REMARK 465 LEU A -7 REMARK 465 ALA A -6 REMARK 465 LEU A -5 REMARK 465 THR A -4 REMARK 465 GLN A -3 REMARK 465 THR A -2 REMARK 465 TRP A -1 REMARK 465 ALA A 0 REMARK 465 ARG A 219 REMARK 465 ASP A 220 REMARK 465 GLY A 221 REMARK 465 GLU A 222 REMARK 465 ASP A 227 REMARK 465 VAL A 249 REMARK 465 PRO A 250 REMARK 465 TYR A 257 REMARK 465 GLU A 275 REMARK 465 PRO A 276 REMARK 465 SER A 277 REMARK 465 SER A 278 REMARK 465 GLN A 279 REMARK 465 PRO A 280 REMARK 465 THR A 281 REMARK 465 ILE A 282 REMARK 465 PRO A 283 REMARK 465 ILE A 284 REMARK 465 VAL A 285 REMARK 465 GLY A 286 REMARK 465 ILE A 287 REMARK 465 ILE A 288 REMARK 465 ALA A 289 REMARK 465 GLY A 290 REMARK 465 LEU A 291 REMARK 465 VAL A 292 REMARK 465 LEU A 293 REMARK 465 PHE A 294 REMARK 465 GLY A 295 REMARK 465 ALA A 296 REMARK 465 VAL A 297 REMARK 465 ILE A 298 REMARK 465 THR A 299 REMARK 465 GLY A 300 REMARK 465 ALA A 301 REMARK 465 VAL A 302 REMARK 465 VAL A 303 REMARK 465 ALA A 304 REMARK 465 ALA A 305 REMARK 465 VAL A 306 REMARK 465 MET A 307 REMARK 465 TRP A 308 REMARK 465 ARG A 309 REMARK 465 ARG A 310 REMARK 465 LYS A 311 REMARK 465 SER A 312 REMARK 465 SER A 313 REMARK 465 ASP A 314 REMARK 465 ARG A 315 REMARK 465 LYS A 316 REMARK 465 GLY A 317 REMARK 465 GLY A 318 REMARK 465 SER A 319 REMARK 465 TYR A 320 REMARK 465 SER A 321 REMARK 465 GLN A 322 REMARK 465 ALA A 323 REMARK 465 ALA A 324 REMARK 465 SER A 325 REMARK 465 SER A 326 REMARK 465 ASP A 327 REMARK 465 SER A 328 REMARK 465 ALA A 329 REMARK 465 GLN A 330 REMARK 465 GLY A 331 REMARK 465 SER A 332 REMARK 465 ASP A 333 REMARK 465 VAL A 334 REMARK 465 SER A 335 REMARK 465 LEU A 336 REMARK 465 THR A 337 REMARK 465 ALA A 338 REMARK 465 CYS A 339 REMARK 465 LYS A 340 REMARK 465 VAL A 341 REMARK 465 GLN D 1 REMARK 465 LYS D 2 REMARK 465 PRO D 215 REMARK 465 GLU D 216 REMARK 465 SER D 217 REMARK 465 SER D 218 REMARK 465 ASP E 1 REMARK 465 THR E 2 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 196 CG OD1 OD2 REMARK 470 GLU A 198 CG CD OE1 OE2 REMARK 470 GLU A 212 CG CD OE1 OE2 REMARK 470 GLN A 218 CG CD OE1 NE2 REMARK 470 ASP A 223 CG OD1 OD2 REMARK 470 GLN A 224 CG CD OE1 NE2 REMARK 470 THR A 225 OG1 CG2 REMARK 470 GLN A 226 CG CD OE1 NE2 REMARK 470 GLU A 229 CG CD OE1 OE2 REMARK 470 VAL A 248 CG1 CG2 REMARK 470 GLN A 253 CG CD OE1 NE2 REMARK 470 ARG A 256 CG CD NE CZ NH1 NH2 REMARK 470 THR A 258 OG1 CG2 REMARK 470 HIS A 260 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 262 CG CD OE1 NE2 REMARK 470 LYS A 268 CG CD CE NZ REMARK 470 LEU A 270 CG CD1 CD2 REMARK 470 ARG A 273 CG CD NE CZ NH1 NH2 REMARK 470 GLU D 5 CD OE1 OE2 REMARK 470 LYS D 48 CE NZ REMARK 470 ARG D 137 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 140 CG CD CE NZ REMARK 470 SER D 142 OG REMARK 470 ASP D 143 CG OD1 OD2 REMARK 470 LYS D 162 CG CD CE NZ REMARK 470 ASP D 165 CG OD1 OD2 REMARK 470 ASN D 191 CG OD1 ND2 REMARK 470 LYS D 192 CG CD CE NZ REMARK 470 GLU E 28 CG CD OE1 OE2 REMARK 470 LEU E 46 CG CD1 CD2 REMARK 470 LYS E 68 NZ REMARK 470 ARG E 70 CG CD NE CZ NH1 NH2 REMARK 470 LEU E 71 CG CD1 CD2 REMARK 470 ASP E 74 CG OD1 OD2 REMARK 470 GLU E 124 CD OE1 OE2 REMARK 470 GLU E 141 CG CD OE1 OE2 REMARK 470 GLU E 228 CG CD OE1 OE2 REMARK 470 ASP E 253 CG OD1 OD2 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 ASP A 29 -126.40 57.97 REMARK 500 LEU A 110 -55.23 -124.32 REMARK 500 HIS A 114 96.45 -162.65 REMARK 500 TYR A 123 -61.22 -130.71 REMARK 500 GLN A 180 43.53 -98.32 REMARK 500 THR A 225 42.80 -156.02 REMARK 500 GLN A 253 47.90 -109.16 REMARK 500 ASP B 98 63.85 -117.89 REMARK 500 ASN D 7 -133.08 -100.44 REMARK 500 SER D 8 -157.05 -168.24 REMARK 500 ASP D 109 -117.83 64.05 REMARK 500 ASP D 130 55.48 -144.05 REMARK 500 LYS D 140 -72.95 -78.85 REMARK 500 SER D 161 97.80 -35.16 REMARK 500 PHE D 201 46.53 -88.69 REMARK 500 PHE D 212 73.25 -115.90 REMARK 500 ASN E 58 -132.95 59.17 REMARK 500 ARG E 80 83.44 -155.49 REMARK 500 ARG E 80 83.44 -150.40 REMARK 500 SER E 85 -111.46 -118.54 REMARK 500 ASP E 109 -76.46 -134.94 REMARK 500 ILE E 110 -40.10 -135.02 REMARK 500 ASP E 162 26.06 -79.90 REMARK 500 ASP E 162 28.88 -79.90 REMARK 500 GLN E 189 83.45 -162.70 REMARK 500 ASN E 229 38.25 -90.65 REMARK 500 THR E 233 -63.65 -107.18 REMARK 500 GLN E 234 140.31 -31.95 REMARK 500 REMARK 500 REMARK: NULL 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 NA A 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN C 3 OE1 REMARK 620 2 ARG C 5 O 88.2 REMARK 620 N 1 DBREF 7RTR A -23 341 UNP Q53Z42 Q53Z42_HUMAN 1 365 DBREF 7RTR B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 7RTR C 1 9 UNP P0DTC2 SPIKE_SARS2 269 277 DBREF 7RTR D 1 218 PDB 7RTR 7RTR 1 218 DBREF 7RTR E 1 253 PDB 7RTR 7RTR 1 253 SEQADV 7RTR MET B 0 UNP P61769 INITIATING METHIONINE SEQRES 1 A 365 MET ALA VAL MET ALA PRO ARG THR LEU VAL LEU LEU LEU SEQRES 2 A 365 SER GLY ALA LEU ALA LEU THR GLN THR TRP ALA GLY SER SEQRES 3 A 365 HIS SER MET ARG TYR PHE PHE THR SER VAL SER ARG PRO SEQRES 4 A 365 GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY TYR VAL SEQRES 5 A 365 ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP ALA ALA SEQRES 6 A 365 SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE GLU GLN SEQRES 7 A 365 GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG LYS VAL SEQRES 8 A 365 LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU GLY THR SEQRES 9 A 365 LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SER HIS SEQRES 10 A 365 THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SER ASP SEQRES 11 A 365 TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA TYR ASP SEQRES 12 A 365 GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU ARG SER SEQRES 13 A 365 TRP THR ALA ALA ASP MET ALA ALA GLN THR THR LYS HIS SEQRES 14 A 365 LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU ARG ALA SEQRES 15 A 365 TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG ARG TYR SEQRES 16 A 365 LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR ASP ALA SEQRES 17 A 365 PRO LYS THR HIS MET THR HIS HIS ALA VAL SER ASP HIS SEQRES 18 A 365 GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE TYR PRO SEQRES 19 A 365 ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY GLU ASP SEQRES 20 A 365 GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG PRO ALA SEQRES 21 A 365 GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL VAL VAL SEQRES 22 A 365 PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS VAL GLN SEQRES 23 A 365 HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG TRP GLU SEQRES 24 A 365 PRO SER SER GLN PRO THR ILE PRO ILE VAL GLY ILE ILE SEQRES 25 A 365 ALA GLY LEU VAL LEU PHE GLY ALA VAL ILE THR GLY ALA SEQRES 26 A 365 VAL VAL ALA ALA VAL MET TRP ARG ARG LYS SER SER ASP SEQRES 27 A 365 ARG LYS GLY GLY SER TYR SER GLN ALA ALA SER SER ASP SEQRES 28 A 365 SER ALA GLN GLY SER ASP VAL SER LEU THR ALA CYS LYS SEQRES 29 A 365 VAL SEQRES 1 B 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 B 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 B 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 B 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 B 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 B 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 B 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 9 TYR LEU GLN PRO ARG THR PHE LEU LEU SEQRES 1 D 203 GLN LYS GLU VAL GLU GLN ASN SER GLY PRO LEU SER VAL SEQRES 2 D 203 PRO GLU GLY ALA ILE ALA SER LEU ASN CYS THR TYR SER SEQRES 3 D 203 ASP ARG GLY SER GLN SER PHE PHE TRP TYR ARG GLN TYR SEQRES 4 D 203 SER GLY LYS SER PRO GLU LEU ILE MET PHE ILE TYR SER SEQRES 5 D 203 ASN GLY ASP LYS GLU ASP GLY ARG PHE THR ALA GLN LEU SEQRES 6 D 203 ASN LYS ALA SER GLN TYR VAL SER LEU LEU ILE ARG ASP SEQRES 7 D 203 SER GLN PRO SER ASP SER ALA THR TYR LEU CYS ALA VAL SEQRES 8 D 203 ASN ARG ASP ASP LYS ILE ILE PHE GLY LYS GLY THR ARG SEQRES 9 D 203 LEU HIS ILE LEU PRO ASN ILE GLN ASN PRO ASP PRO ALA SEQRES 10 D 203 VAL TYR GLN LEU ARG ASP SER LYS SER SER ASP LYS SER SEQRES 11 D 203 VAL CYS LEU PHE THR ASP PHE ASP SER GLN THR ASN VAL SEQRES 12 D 203 SER GLN SER LYS ASP SER ASP VAL TYR ILE THR ASP LYS SEQRES 13 D 203 CYS VAL LEU ASP MET ARG SER MET ASP PHE LYS SER ASN SEQRES 14 D 203 SER ALA VAL ALA TRP SER ASN LYS SER ASP PHE ALA CYS SEQRES 15 D 203 ALA ASN ALA PHE ASN ASN SER ILE ILE PRO GLU ASP THR SEQRES 16 D 203 PHE PHE PRO SER PRO GLU SER SER SEQRES 1 E 241 ASP THR GLY VAL SER GLN ASN PRO ARG HIS LYS ILE THR SEQRES 2 E 241 LYS ARG GLY GLN ASN VAL THR PHE ARG CYS ASP PRO ILE SEQRES 3 E 241 SER GLU HIS ASN ARG LEU TYR TRP TYR ARG GLN THR LEU SEQRES 4 E 241 GLY GLN GLY PRO GLU PHE LEU THR TYR PHE GLN ASN GLU SEQRES 5 E 241 ALA GLN LEU GLU LYS SER ARG LEU LEU SER ASP ARG PHE SEQRES 6 E 241 SER ALA GLU ARG PRO LYS GLY SER PHE SER THR LEU GLU SEQRES 7 E 241 ILE GLN ARG THR GLU GLN GLY ASP SER ALA MET TYR LEU SEQRES 8 E 241 CYS ALA SER SER PRO ASP ILE GLU GLN TYR PHE GLY PRO SEQRES 9 E 241 GLY THR ARG LEU THR VAL THR GLU ASP LEU LYS ASN VAL SEQRES 10 E 241 PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SER GLU ALA SEQRES 11 E 241 GLU ILE SER HIS THR GLN LYS ALA THR LEU VAL CYS LEU SEQRES 12 E 241 ALA THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SER TRP SEQRES 13 E 241 TRP VAL ASN GLY LYS GLU VAL HIS SER GLY VAL CYS THR SEQRES 14 E 241 ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU ASN ASP SEQRES 15 E 241 SER ARG TYR ALA LEU SER SER ARG LEU ARG VAL SER ALA SEQRES 16 E 241 THR PHE TRP GLN ASN PRO ARG ASN HIS PHE ARG CYS GLN SEQRES 17 E 241 VAL GLN PHE TYR GLY LEU SER GLU ASN ASP GLU TRP THR SEQRES 18 E 241 GLN ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SER ALA SEQRES 19 E 241 GLU ALA TRP GLY ARG ALA ASP HET NA A 401 1 HET NA A 402 1 HET NA D 301 1 HET NA D 302 1 HETNAM NA SODIUM ION FORMUL 6 NA 4(NA 1+) FORMUL 10 HOH *47(H2 O) HELIX 1 AA1 ALA A 49 GLU A 53 5 5 HELIX 2 AA2 GLY A 56 TYR A 85 1 30 HELIX 3 AA3 ALA A 139 ALA A 150 1 12 HELIX 4 AA4 HIS A 151 GLY A 162 1 12 HELIX 5 AA5 GLY A 162 GLY A 175 1 14 HELIX 6 AA6 GLY A 175 GLN A 180 1 6 HELIX 7 AA7 GLN D 95 SER D 99 5 5 HELIX 8 AA8 ARG D 177 ASP D 180 5 4 HELIX 9 AA9 ALA D 196 ALA D 200 5 5 HELIX 10 AB1 GLU E 95 SER E 99 5 5 HELIX 11 AB2 ASP E 125 VAL E 129 5 5 HELIX 12 AB3 SER E 140 GLN E 148 1 9 HELIX 13 AB4 ALA E 207 GLN E 211 1 5 SHEET 1 AA1 8 GLU A 46 PRO A 47 0 SHEET 2 AA1 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 AA1 8 GLY A 18 VAL A 28 -1 N GLY A 26 O PHE A 33 SHEET 4 AA1 8 HIS A 3 ARG A 14 -1 N THR A 10 O ILE A 23 SHEET 5 AA1 8 THR A 94 VAL A 103 -1 O ARG A 97 N PHE A 9 SHEET 6 AA1 8 PHE A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 AA1 8 LYS A 121 LEU A 126 -1 O ILE A 124 N TYR A 116 SHEET 8 AA1 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 AA2 4 LYS A 186 HIS A 192 0 SHEET 2 AA2 4 THR A 200 PHE A 208 -1 O LEU A 206 N LYS A 186 SHEET 3 AA2 4 PHE A 241 VAL A 247 -1 O ALA A 245 N CYS A 203 SHEET 4 AA2 4 GLU A 229 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 AA3 4 LYS A 186 HIS A 192 0 SHEET 2 AA3 4 THR A 200 PHE A 208 -1 O LEU A 206 N LYS A 186 SHEET 3 AA3 4 PHE A 241 VAL A 247 -1 O ALA A 245 N CYS A 203 SHEET 4 AA3 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 AA4 3 ILE A 213 TRP A 217 0 SHEET 2 AA4 3 CYS A 259 HIS A 263 -1 O HIS A 260 N THR A 216 SHEET 3 AA4 3 LEU A 270 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 AA5 4 LYS B 6 SER B 11 0 SHEET 2 AA5 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA5 4 PHE B 62 PHE B 70 -1 O PHE B 70 N ASN B 21 SHEET 4 AA5 4 GLU B 50 HIS B 51 -1 N GLU B 50 O TYR B 67 SHEET 1 AA6 4 LYS B 6 SER B 11 0 SHEET 2 AA6 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA6 4 PHE B 62 PHE B 70 -1 O PHE B 70 N ASN B 21 SHEET 4 AA6 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 AA7 4 GLU B 44 ARG B 45 0 SHEET 2 AA7 4 GLU B 36 LYS B 41 -1 N LYS B 41 O GLU B 44 SHEET 3 AA7 4 TYR B 78 ASN B 83 -1 O ASN B 83 N GLU B 36 SHEET 4 AA7 4 LYS B 91 LYS B 94 -1 O LYS B 91 N VAL B 82 SHEET 1 AA8 5 GLU D 5 GLN D 6 0 SHEET 2 AA8 5 ALA D 19 TYR D 25 -1 O THR D 24 N GLN D 6 SHEET 3 AA8 5 TYR D 86 ILE D 91 -1 O LEU D 89 N LEU D 21 SHEET 4 AA8 5 PHE D 76 ASN D 81 -1 N ASN D 81 O TYR D 86 SHEET 5 AA8 5 GLY D 64 ASP D 68 -1 N ASP D 68 O PHE D 76 SHEET 1 AA9 5 LEU D 11 PRO D 14 0 SHEET 2 AA9 5 THR D 118 LEU D 123 1 O HIS D 121 N LEU D 11 SHEET 3 AA9 5 ALA D 100 ARG D 108 -1 N TYR D 102 O THR D 118 SHEET 4 AA9 5 PHE D 39 GLN D 44 -1 N TYR D 42 O LEU D 103 SHEET 5 AA9 5 GLU D 51 ILE D 56 -1 O ILE D 56 N PHE D 39 SHEET 1 AB1 4 LEU D 11 PRO D 14 0 SHEET 2 AB1 4 THR D 118 LEU D 123 1 O HIS D 121 N LEU D 11 SHEET 3 AB1 4 ALA D 100 ARG D 108 -1 N TYR D 102 O THR D 118 SHEET 4 AB1 4 LYS D 111 PHE D 114 -1 O ILE D 113 N VAL D 106 SHEET 1 AB2 4 ALA D 132 ARG D 137 0 SHEET 2 AB2 4 SER D 145 THR D 150 -1 O VAL D 146 N LEU D 136 SHEET 3 AB2 4 PHE D 181 SER D 190 -1 O ALA D 188 N CYS D 147 SHEET 4 AB2 4 VAL D 166 ILE D 168 -1 N TYR D 167 O TRP D 189 SHEET 1 AB3 4 ALA D 132 ARG D 137 0 SHEET 2 AB3 4 SER D 145 THR D 150 -1 O VAL D 146 N LEU D 136 SHEET 3 AB3 4 PHE D 181 SER D 190 -1 O ALA D 188 N CYS D 147 SHEET 4 AB3 4 CYS D 172 MET D 176 -1 N MET D 176 O PHE D 181 SHEET 1 AB4 4 SER E 5 ASN E 7 0 SHEET 2 AB4 4 VAL E 19 ASP E 24 -1 O ARG E 22 N ASN E 7 SHEET 3 AB4 4 SER E 87 ILE E 91 -1 O LEU E 89 N PHE E 21 SHEET 4 AB4 4 PHE E 76 GLU E 79 -1 N GLU E 79 O THR E 88 SHEET 1 AB5 6 HIS E 10 LYS E 14 0 SHEET 2 AB5 6 THR E 118 THR E 123 1 O ARG E 119 N LYS E 11 SHEET 3 AB5 6 ALA E 100 SER E 107 -1 N ALA E 100 O LEU E 120 SHEET 4 AB5 6 ARG E 38 GLN E 44 -1 N GLN E 44 O MET E 101 SHEET 5 AB5 6 GLU E 51 GLN E 57 -1 O GLU E 51 N ARG E 43 SHEET 6 AB5 6 ALA E 64 LYS E 68 -1 O ALA E 64 N GLN E 57 SHEET 1 AB6 4 HIS E 10 LYS E 14 0 SHEET 2 AB6 4 THR E 118 THR E 123 1 O ARG E 119 N LYS E 11 SHEET 3 AB6 4 ALA E 100 SER E 107 -1 N ALA E 100 O LEU E 120 SHEET 4 AB6 4 TYR E 113 PHE E 114 -1 O TYR E 113 N SER E 106 SHEET 1 AB7 4 GLU E 133 PHE E 137 0 SHEET 2 AB7 4 LYS E 149 PHE E 159 -1 O LEU E 155 N ALA E 135 SHEET 3 AB7 4 TYR E 197 SER E 206 -1 O LEU E 199 N ALA E 156 SHEET 4 AB7 4 VAL E 179 THR E 181 -1 N CYS E 180 O ARG E 202 SHEET 1 AB8 4 GLU E 133 PHE E 137 0 SHEET 2 AB8 4 LYS E 149 PHE E 159 -1 O LEU E 155 N ALA E 135 SHEET 3 AB8 4 TYR E 197 SER E 206 -1 O LEU E 199 N ALA E 156 SHEET 4 AB8 4 LEU E 186 LYS E 187 -1 N LEU E 186 O ALA E 198 SHEET 1 AB9 4 LYS E 173 VAL E 175 0 SHEET 2 AB9 4 VAL E 164 VAL E 170 -1 N VAL E 170 O LYS E 173 SHEET 3 AB9 4 HIS E 216 PHE E 223 -1 O GLN E 220 N SER E 167 SHEET 4 AB9 4 GLN E 242 TRP E 249 -1 O GLN E 242 N PHE E 223 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.07 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.04 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.07 SSBOND 4 CYS D 23 CYS D 104 1555 1555 2.04 SSBOND 5 CYS D 147 CYS D 197 1555 1555 2.05 SSBOND 6 CYS D 172 CYS E 180 1555 1555 2.98 SSBOND 7 CYS E 23 CYS E 104 1555 1555 2.02 SSBOND 8 CYS E 154 CYS E 219 1555 1555 2.01 LINK NA NA A 401 OE1 GLN C 3 1555 1555 3.14 LINK NA NA A 401 O ARG C 5 1555 1555 2.52 CISPEP 1 TYR A 209 PRO A 210 0 -0.13 CISPEP 2 HIS B 31 PRO B 32 0 -1.41 CISPEP 3 ASN E 7 PRO E 8 0 0.33 CISPEP 4 TYR E 160 PRO E 161 0 3.55 CRYST1 225.356 49.622 91.725 90.00 91.83 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 0.004437 0.000000 0.000142 0.00000 SCALE2 0.000000 0.020152 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010908 0.00000