HEADER IMMUNE SYSTEM 27-MAY-21 7N1F TITLE SARS-COV-2 YLQ PEPTIDE-SPECIFIC TCR PYLQ7 BINDS TO YLQ-HLA-A2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYLQ7 T CELL RECEPTOR ALPHA CHAIN; COMPND 3 CHAIN: D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PYLQ7 T CELL RECEPTOR BETA CHAIN; COMPND 7 CHAIN: E; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: MHC CLASS I ANTIGEN, A-2 ALPHA CHAIN; COMPND 11 CHAIN: A; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 15 CHAIN: B; COMPND 16 FRAGMENT: UNP RESIDUES 21-119; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 5; COMPND 19 MOLECULE: SPIKE PROTEIN S1; COMPND 20 CHAIN: C; COMPND 21 FRAGMENT: EPITOPE YLQPRTFLL (UNP RESIDUES 269-277); COMPND 22 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: TCR ALPHA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: TCR BETA; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: HLA-A; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606; SOURCE 26 GENE: B2M, CDABP0092, HDCMA22P; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 28 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 29 MOL_ID: 5; SOURCE 30 SYNTHETIC: YES; SOURCE 31 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 32 2; SOURCE 33 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 34 ORGANISM_TAXID: 2697049 KEYWDS TCR-PMHC, SARS-COV-2, SPIKE, YLQ, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR D.WU,R.A.MARIUZZA REVDAT 4 18-OCT-23 7N1F 1 JRNL REVDAT 3 02-FEB-22 7N1F 1 JRNL REVDAT 2 18-AUG-21 7N1F 1 JRNL REVDAT 1 28-JUL-21 7N1F 0 JRNL AUTH D.WU,A.KOLESNIKOV,R.YIN,J.D.GUEST,R.GOWTHAMAN,A.SHMELEV, JRNL AUTH 2 Y.SERDYUK,D.V.DIANOV,G.A.EFIMOV,B.G.PIERCE,R.A.MARIUZZA JRNL TITL STRUCTURAL ASSESSMENT OF HLA-A2-RESTRICTED SARS-COV-2 SPIKE JRNL TITL 2 EPITOPES RECOGNIZED BY PUBLIC AND PRIVATE T-CELL RECEPTORS. JRNL REF NAT COMMUN V. 13 19 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35013235 JRNL DOI 10.1038/S41467-021-27669-8 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.WU,A.KOLESNIKOV,R.YIN,J.D.GUEST,R.GOWTHAMAN,A.SHMELEV, REMARK 1 AUTH 2 Y.SERDYUK,G.A.EFIMOV,B.G.PIERCE,R.A.MARIUZZA REMARK 1 TITL STRUCTURAL BASIS FOR RECOGNITION OF TWO HLA-A2-RESTRICTED REMARK 1 TITL 2 SARS-COV-2 SPIKE EPITOPES BY PUBLIC AND PRIVATE T CELL REMARK 1 TITL 3 RECEPTORS REMARK 1 REF BIORXIV 2021 REMARK 1 REFN ISSN 2692-8205 REMARK 1 DOI 10.1101/2021.07.28.454232 REMARK 2 REMARK 2 RESOLUTION. 2.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 39632 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1987 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.6000 - 5.7645 1.00 2862 127 0.1715 0.1747 REMARK 3 2 5.7645 - 4.5765 1.00 2787 129 0.1580 0.1959 REMARK 3 3 4.5765 - 3.9983 1.00 2725 150 0.1658 0.2074 REMARK 3 4 3.9983 - 3.6329 1.00 2728 143 0.1841 0.1973 REMARK 3 5 3.6329 - 3.3726 1.00 2702 155 0.2068 0.2264 REMARK 3 6 3.3726 - 3.1738 1.00 2693 154 0.2246 0.2832 REMARK 3 7 3.1738 - 3.0149 1.00 2682 151 0.2359 0.3001 REMARK 3 8 3.0149 - 2.8836 1.00 2650 142 0.2324 0.3137 REMARK 3 9 2.8836 - 2.7726 1.00 2700 156 0.2437 0.2918 REMARK 3 10 2.7726 - 2.6770 0.99 2670 137 0.2406 0.3175 REMARK 3 11 2.6770 - 2.5933 0.99 2684 128 0.2490 0.3167 REMARK 3 12 2.5933 - 2.5191 1.00 2693 155 0.2462 0.3038 REMARK 3 13 2.5191 - 2.4528 0.99 2612 139 0.2632 0.3200 REMARK 3 14 2.4528 - 2.3930 0.89 2457 121 0.2832 0.3841 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.530 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7N1F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1000257160. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 133860 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 REMARK 200 RESOLUTION RANGE LOW (A) : 48.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 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 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: PHENIX REMARK 200 STARTING MODEL: 6XQP, 4UDT, 6VR5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: IN 0.1M AMMONIUM SULFATE, 0.3M SODIUM REMARK 280 FORMATE, 0.1M SODIUM ACETATE (PH 5.0), 3% (W/V) GAMA-PGA (NA+ REMARK 280 FORM, LM), 3% (W/V) PEG 20000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K 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 112.66450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.53350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 112.66450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.53350 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: D, E, A, B, C 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH E 324 LIES ON A SPECIAL POSITION. 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 D 0 REMARK 465 GLN D 1 REMARK 465 SER D 127 REMARK 465 PRO D 200 REMARK 465 GLU D 201 REMARK 465 SER D 202 REMARK 465 SER D 203 REMARK 465 MET E 0 REMARK 465 ASP E 1 REMARK 465 ARG A 273 REMARK 465 TRP A 274 REMARK 465 GLU A 275 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 LYS D 125 CG CD CE NZ REMARK 470 ASP D 179 CG OD1 OD2 REMARK 470 GLU E 129 CG CD OE1 OE2 REMARK 470 ARG A 108 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 219 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 220 CG OD1 OD2 REMARK 470 GLU A 222 CG CD OE1 OE2 REMARK 470 ASP A 223 CG OD1 OD2 REMARK 470 GLU A 232 CG CD OE1 OE2 REMARK 470 ARG A 256 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 69 CG CD OE1 OE2 REMARK 470 LYS B 75 CG CD CE NZ 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 OG1 THR A 182 OE2 GLU A 264 1.63 REMARK 500 O MET D 164 O HOH D 301 1.89 REMARK 500 OE1 GLN E 208 O HOH E 301 1.89 REMARK 500 OG1 THR E 109 O HOH E 302 2.08 REMARK 500 O HOH A 331 O HOH B 113 2.09 REMARK 500 O HOH A 319 O HOH A 330 2.15 REMARK 500 OG SER D 52 OE2 GLU A 154 2.16 REMARK 500 OE1 GLU E 99 O HOH E 303 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD1 ASP D 194 NH1 ARG A 170 2555 1.20 REMARK 500 OD1 ASP D 194 CZ ARG A 170 2555 1.41 REMARK 500 OD1 ASP D 194 NH2 ARG A 170 2555 1.50 REMARK 500 OE1 GLU E 68 NZ LYS B 94 4545 1.55 REMARK 500 CG ASP D 194 NH2 ARG A 170 2555 1.55 REMARK 500 OD2 ASP D 194 NH2 ARG A 170 2555 1.79 REMARK 500 CD GLU E 68 NZ LYS B 94 4545 1.94 REMARK 500 CG ASP D 194 CZ ARG A 170 2555 2.16 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 LYS D 42 -169.95 -125.83 REMARK 500 ASP D 94 -133.40 64.15 REMARK 500 LYS D 156 77.14 -8.09 REMARK 500 CYS D 157 104.78 -17.51 REMARK 500 ASP D 165 -50.35 72.12 REMARK 500 PRO D 192 150.68 -49.70 REMARK 500 ASN E 51 -126.29 52.87 REMARK 500 SER E 73 -106.70 -117.07 REMARK 500 ALA E 88 172.90 179.76 REMARK 500 ASP E 97 -73.90 -150.14 REMARK 500 ILE E 98 -40.87 -133.64 REMARK 500 LEU E 180 140.37 -173.41 REMARK 500 ASP A 29 -122.57 51.30 REMARK 500 HIS A 114 102.41 -165.52 REMARK 500 LYS A 243 148.18 -171.41 REMARK 500 GLN A 253 75.93 -119.56 REMARK 500 PRO A 269 87.81 -51.45 REMARK 500 TRP B 60 4.28 84.04 REMARK 500 REMARK 500 REMARK: NULL DBREF 7N1F D 0 203 PDB 7N1F 7N1F 0 203 DBREF 7N1F E 0 241 PDB 7N1F 7N1F 0 241 DBREF1 7N1F A 1 275 UNP A0A5B8RNS7_HUMAN DBREF2 7N1F A A0A5B8RNS7 25 299 DBREF 7N1F B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 7N1F C 1 9 UNP P0DTC2 SPIKE_SARS2 269 277 SEQADV 7N1F MET B 0 UNP P61769 INITIATING METHIONINE SEQRES 1 D 204 MET GLN LYS GLU VAL GLU GLN ASN SER GLY PRO LEU SER SEQRES 2 D 204 VAL PRO GLU GLY ALA ILE ALA SER LEU ASN CYS THR TYR SEQRES 3 D 204 SER ASP ARG GLY SER GLN SER PHE PHE TRP TYR ARG GLN SEQRES 4 D 204 TYR SER GLY LYS SER PRO GLU LEU ILE MET PHE ILE TYR SEQRES 5 D 204 SER ASN GLY ASP LYS GLU ASP GLY ARG PHE THR ALA GLN SEQRES 6 D 204 LEU ASN LYS ALA SER GLN TYR VAL SER LEU LEU ILE ARG SEQRES 7 D 204 ASP SER GLN PRO SER ASP SER ALA THR TYR LEU CYS ALA SEQRES 8 D 204 VAL ASN ARG ASP ASP LYS ILE ILE PHE GLY LYS GLY THR SEQRES 9 D 204 ARG LEU HIS ILE LEU PRO ASN ILE GLN ASN PRO ASP PRO SEQRES 10 D 204 ALA VAL TYR GLN LEU ARG ASP SER LYS SER SER ASP LYS SEQRES 11 D 204 SER VAL CYS LEU PHE THR ASP PHE ASP SER GLN THR ASN SEQRES 12 D 204 VAL SER GLN SER LYS ASP SER ASP VAL TYR ILE THR ASP SEQRES 13 D 204 LYS CYS VAL LEU ASP MET ARG SER MET ASP PHE LYS SER SEQRES 14 D 204 ASN SER ALA VAL ALA TRP SER ASN LYS SER ASP PHE ALA SEQRES 15 D 204 CYS ALA ASN ALA PHE ASN ASN SER ILE ILE PRO GLU ASP SEQRES 16 D 204 THR PHE PHE PRO SER PRO GLU SER SER SEQRES 1 E 242 MET ASP THR GLY VAL SER GLN ASN PRO ARG HIS LYS ILE SEQRES 2 E 242 THR LYS ARG GLY GLN ASN VAL THR PHE ARG CYS ASP PRO SEQRES 3 E 242 ILE SER GLU HIS ASN ARG LEU TYR TRP TYR ARG GLN THR SEQRES 4 E 242 LEU GLY GLN GLY PRO GLU PHE LEU THR TYR PHE GLN ASN SEQRES 5 E 242 GLU ALA GLN LEU GLU LYS SER ARG LEU LEU SER ASP ARG SEQRES 6 E 242 PHE SER ALA GLU ARG PRO LYS GLY SER PHE SER THR LEU SEQRES 7 E 242 GLU ILE GLN ARG THR GLU GLN GLY ASP SER ALA MET TYR SEQRES 8 E 242 LEU CYS ALA SER SER PRO ASP ILE GLU GLN TYR PHE GLY SEQRES 9 E 242 PRO GLY THR ARG LEU THR VAL THR GLU ASP LEU LYS ASN SEQRES 10 E 242 VAL PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SER GLU SEQRES 11 E 242 ALA GLU ILE SER HIS THR GLN LYS ALA THR LEU VAL CYS SEQRES 12 E 242 LEU ALA THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SER SEQRES 13 E 242 TRP TRP VAL ASN GLY LYS GLU VAL HIS SER GLY VAL CYS SEQRES 14 E 242 THR ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU ASN SEQRES 15 E 242 ASP SER ARG TYR ALA LEU SER SER ARG LEU ARG VAL SER SEQRES 16 E 242 ALA THR PHE TRP GLN ASN PRO ARG ASN HIS PHE ARG CYS SEQRES 17 E 242 GLN VAL GLN PHE TYR GLY LEU SER GLU ASN ASP GLU TRP SEQRES 18 E 242 THR GLN ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SER SEQRES 19 E 242 ALA GLU ALA TRP GLY ARG ALA ASP SEQRES 1 A 275 GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SER SEQRES 2 A 275 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 A 275 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 275 ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 A 275 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 A 275 LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU SEQRES 7 A 275 GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 A 275 SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 275 SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA SEQRES 10 A 275 TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU SEQRES 11 A 275 ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR THR SEQRES 12 A 275 LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU SEQRES 13 A 275 ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG SEQRES 14 A 275 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR SEQRES 15 A 275 ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SER SEQRES 16 A 275 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE SEQRES 17 A 275 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 A 275 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 A 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 A 275 VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS SEQRES 21 A 275 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 A 275 TRP GLU 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 FORMUL 6 HOH *87(H2 O) HELIX 1 AA1 GLN D 80 SER D 84 5 5 HELIX 2 AA2 GLU E 83 SER E 87 5 5 HELIX 3 AA3 ASP E 113 VAL E 117 5 5 HELIX 4 AA4 SER E 128 GLN E 136 1 9 HELIX 5 AA5 ALA E 195 ASN E 200 1 6 HELIX 6 AA6 ALA A 49 GLU A 53 5 5 HELIX 7 AA7 GLY A 56 TYR A 85 1 30 HELIX 8 AA8 ASP A 137 ALA A 150 1 14 HELIX 9 AA9 HIS A 151 GLY A 162 1 12 HELIX 10 AB1 GLY A 162 GLY A 175 1 14 HELIX 11 AB2 GLY A 175 GLN A 180 1 6 SHEET 1 AA1 5 VAL D 4 GLN D 6 0 SHEET 2 AA1 5 ALA D 19 TYR D 25 -1 O THR D 24 N GLU D 5 SHEET 3 AA1 5 TYR D 71 ILE D 76 -1 O VAL D 72 N CYS D 23 SHEET 4 AA1 5 PHE D 61 ASN D 66 -1 N THR D 62 O LEU D 75 SHEET 5 AA1 5 GLY D 54 ASP D 58 -1 N LYS D 56 O ALA D 63 SHEET 1 AA2 5 LEU D 11 PRO D 14 0 SHEET 2 AA2 5 THR D 103 LEU D 108 1 O ARG D 104 N LEU D 11 SHEET 3 AA2 5 ALA D 85 ARG D 93 -1 N TYR D 87 O THR D 103 SHEET 4 AA2 5 PHE D 33 GLN D 38 -1 N TYR D 36 O LEU D 88 SHEET 5 AA2 5 GLU D 45 ILE D 50 -1 O GLU D 45 N ARG D 37 SHEET 1 AA3 4 LEU D 11 PRO D 14 0 SHEET 2 AA3 4 THR D 103 LEU D 108 1 O ARG D 104 N LEU D 11 SHEET 3 AA3 4 ALA D 85 ARG D 93 -1 N TYR D 87 O THR D 103 SHEET 4 AA3 4 LYS D 96 PHE D 99 -1 O ILE D 98 N VAL D 91 SHEET 1 AA4 4 ALA D 117 LEU D 121 0 SHEET 2 AA4 4 SER D 130 THR D 135 -1 O LEU D 133 N TYR D 119 SHEET 3 AA4 4 SER D 170 SER D 175 -1 O ALA D 171 N PHE D 134 SHEET 4 AA4 4 TYR D 152 ILE D 153 -1 N TYR D 152 O TRP D 174 SHEET 1 AA5 4 SER E 5 ASN E 7 0 SHEET 2 AA5 4 VAL E 19 ASP E 24 -1 O ARG E 22 N ASN E 7 SHEET 3 AA5 4 SER E 75 ILE E 79 -1 O SER E 75 N CYS E 23 SHEET 4 AA5 4 PHE E 65 GLU E 68 -1 N GLU E 68 O THR E 76 SHEET 1 AA6 6 HIS E 10 LYS E 14 0 SHEET 2 AA6 6 THR E 106 THR E 111 1 O THR E 109 N THR E 13 SHEET 3 AA6 6 ALA E 88 SER E 95 -1 N TYR E 90 O THR E 106 SHEET 4 AA6 6 ARG E 31 GLN E 37 -1 N TYR E 33 O ALA E 93 SHEET 5 AA6 6 GLU E 44 GLN E 50 -1 O GLU E 44 N ARG E 36 SHEET 6 AA6 6 ALA E 53 LYS E 57 -1 O ALA E 53 N GLN E 50 SHEET 1 AA7 4 HIS E 10 LYS E 14 0 SHEET 2 AA7 4 THR E 106 THR E 111 1 O THR E 109 N THR E 13 SHEET 3 AA7 4 ALA E 88 SER E 95 -1 N TYR E 90 O THR E 106 SHEET 4 AA7 4 TYR E 101 PHE E 102 -1 O TYR E 101 N SER E 94 SHEET 1 AA8 4 GLU E 121 PHE E 125 0 SHEET 2 AA8 4 LYS E 137 PHE E 147 -1 O VAL E 141 N PHE E 125 SHEET 3 AA8 4 TYR E 185 SER E 194 -1 O LEU E 191 N LEU E 140 SHEET 4 AA8 4 VAL E 167 THR E 169 -1 N CYS E 168 O ARG E 190 SHEET 1 AA9 4 GLU E 121 PHE E 125 0 SHEET 2 AA9 4 LYS E 137 PHE E 147 -1 O VAL E 141 N PHE E 125 SHEET 3 AA9 4 TYR E 185 SER E 194 -1 O LEU E 191 N LEU E 140 SHEET 4 AA9 4 LEU E 174 LYS E 175 -1 N LEU E 174 O ALA E 186 SHEET 1 AB1 4 LYS E 161 VAL E 163 0 SHEET 2 AB1 4 VAL E 152 VAL E 158 -1 N VAL E 158 O LYS E 161 SHEET 3 AB1 4 HIS E 204 PHE E 211 -1 O GLN E 208 N SER E 155 SHEET 4 AB1 4 GLN E 230 TRP E 237 -1 O GLN E 230 N PHE E 211 SHEET 1 AB2 8 GLU A 46 PRO A 47 0 SHEET 2 AB2 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 AB2 8 ARG A 21 VAL A 28 -1 N ALA A 24 O PHE A 36 SHEET 4 AB2 8 HIS A 3 VAL A 12 -1 N PHE A 8 O VAL A 25 SHEET 5 AB2 8 THR A 94 VAL A 103 -1 O ARG A 97 N PHE A 9 SHEET 6 AB2 8 PHE A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 AB2 8 LYS A 121 LEU A 126 -1 O ILE A 124 N TYR A 116 SHEET 8 AB2 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 AB3 4 LYS A 186 HIS A 192 0 SHEET 2 AB3 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AB3 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 AB3 4 THR A 228 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 AB4 4 LYS A 186 HIS A 192 0 SHEET 2 AB4 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AB4 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 AB4 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 AB5 3 THR A 214 ARG A 219 0 SHEET 2 AB5 3 TYR A 257 GLN A 262 -1 O HIS A 260 N THR A 216 SHEET 3 AB5 3 THR A 271 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 AB6 4 LYS B 6 SER B 11 0 SHEET 2 AB6 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AB6 4 PHE B 62 PHE B 70 -1 O TYR B 66 N CYS B 25 SHEET 4 AB6 4 GLU B 50 HIS B 51 -1 N GLU B 50 O TYR B 67 SHEET 1 AB7 4 LYS B 6 SER B 11 0 SHEET 2 AB7 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AB7 4 PHE B 62 PHE B 70 -1 O TYR B 66 N CYS B 25 SHEET 4 AB7 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 AB8 4 GLU B 44 ARG B 45 0 SHEET 2 AB8 4 ILE B 35 LYS B 41 -1 N LYS B 41 O GLU B 44 SHEET 3 AB8 4 TYR B 78 HIS B 84 -1 O ARG B 81 N ASP B 38 SHEET 4 AB8 4 LYS B 91 LYS B 94 -1 O LYS B 91 N VAL B 82 SSBOND 1 CYS D 23 CYS D 89 1555 1555 2.05 SSBOND 2 CYS D 132 CYS D 182 1555 1555 2.08 SSBOND 3 CYS D 157 CYS E 168 1555 1555 2.05 SSBOND 4 CYS E 23 CYS E 92 1555 1555 2.04 SSBOND 5 CYS E 142 CYS E 207 1555 1555 2.03 SSBOND 6 CYS A 101 CYS A 164 1555 1555 2.10 SSBOND 7 CYS A 203 CYS A 259 1555 1555 2.04 SSBOND 8 CYS B 25 CYS B 80 1555 1555 2.09 CISPEP 1 ASN E 7 PRO E 8 0 -4.39 CISPEP 2 TYR E 148 PRO E 149 0 0.92 CISPEP 3 TYR A 209 PRO A 210 0 2.39 CISPEP 4 HIS B 31 PRO B 32 0 -0.75 CRYST1 225.329 49.067 91.451 90.00 91.81 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 0.004438 0.000000 0.000140 0.00000 SCALE2 0.000000 0.020380 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010940 0.00000