HEADER VIRAL PROTEIN 14-DEC-21 7T72 TITLE EPITOPE-BASED SELECTION OF SARS-COV-2 NEUTRALIZING ANTIBODIES FROM TITLE 2 CONVALESCENT PATIENTS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTIBODY LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ANTIBODY HEAVY CHAIN; COMPND 7 CHAIN: H; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: FAB FORMAT WITH C-TERMINAL HIS TAG; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: SPIKE PROTEIN S1; COMPND 12 CHAIN: A; COMPND 13 FRAGMENT: RECEPTOR BINDING DOMAIN (RBD); COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 15 2; SOURCE 16 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 17 ORGANISM_TAXID: 2697049; SOURCE 18 GENE: S, 2; SOURCE 19 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 10029 KEYWDS SARS-COV2, ANTIBODY, RECEPTOR BINDING DOMAIN, NEUTRALIZING, VIRAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.B.LANGLEY,D.CHRIST,R.ROUET REVDAT 3 03-APR-24 7T72 1 REMARK REVDAT 2 29-MAR-23 7T72 1 JRNL REVDAT 1 21-DEC-22 7T72 0 JRNL AUTH R.ROUET,J.Y.HENRY,M.D.JOHANSEN,M.SOBTI,H.BALACHANDRAN, JRNL AUTH 2 D.B.LANGLEY,G.J.WALKER,H.LENTHALL,J.JACKSON,S.UBIPARIPOVIC, JRNL AUTH 3 O.MAZIGI,P.SCHOFIELD,D.L.BURNETT,S.H.J.BROWN,M.MARTINELLO, JRNL AUTH 4 B.HUDSON,N.GILROY,J.J.POST,A.KELLEHER,H.M.JACK,C.C.GOODNOW, JRNL AUTH 5 S.G.TURVILLE,W.D.RAWLINSON,R.A.BULL,A.G.STEWART,P.M.HANSBRO, JRNL AUTH 6 D.CHRIST JRNL TITL BROADLY NEUTRALIZING SARS-COV-2 ANTIBODIES THROUGH JRNL TITL 2 EPITOPE-BASED SELECTION FROM CONVALESCENT PATIENTS. JRNL REF NAT COMMUN V. 14 687 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 36755042 JRNL DOI 10.1038/S41467-023-36295-5 REMARK 2 REMARK 2 RESOLUTION. 3.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1 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) : 3.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 13939 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.308 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 674 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 48.6980 - 5.4307 1.00 2779 137 0.2168 0.2862 REMARK 3 2 5.4307 - 4.3113 1.00 2667 135 0.2171 0.2926 REMARK 3 3 4.3113 - 3.7666 1.00 2635 147 0.2542 0.3192 REMARK 3 4 3.7666 - 3.4223 1.00 2638 124 0.2960 0.3542 REMARK 3 5 3.4223 - 3.1771 0.97 2546 131 0.3631 0.4576 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) : 0.540 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.740 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 123.2 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 134.2 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 : 0.003 4622 REMARK 3 ANGLE : 0.809 6349 REMARK 3 CHIRALITY : 0.048 724 REMARK 3 PLANARITY : 0.005 836 REMARK 3 DIHEDRAL : 7.418 2667 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN L AND RESSEQ 1:211) REMARK 3 ORIGIN FOR THE GROUP (A): -37.3451 10.0075 39.5760 REMARK 3 T TENSOR REMARK 3 T11: 0.4308 T22: 1.2503 REMARK 3 T33: 0.9178 T12: -0.0400 REMARK 3 T13: -0.1116 T23: 0.0676 REMARK 3 L TENSOR REMARK 3 L11: -0.0436 L22: 5.1610 REMARK 3 L33: 1.7111 L12: -0.9866 REMARK 3 L13: -0.8235 L23: 1.7254 REMARK 3 S TENSOR REMARK 3 S11: 0.3219 S12: 0.3676 S13: -0.0092 REMARK 3 S21: -0.1963 S22: -0.4672 S23: -0.6752 REMARK 3 S31: -0.2646 S32: -0.3144 S33: 0.1585 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN H AND RESSEQ 1:222) REMARK 3 ORIGIN FOR THE GROUP (A): -28.1729 18.5354 53.3278 REMARK 3 T TENSOR REMARK 3 T11: 0.9614 T22: 1.3909 REMARK 3 T33: 1.1580 T12: -0.0115 REMARK 3 T13: -0.2488 T23: 0.1859 REMARK 3 L TENSOR REMARK 3 L11: 0.3414 L22: 5.2005 REMARK 3 L33: -0.5338 L12: -1.9452 REMARK 3 L13: -0.4036 L23: 1.5786 REMARK 3 S TENSOR REMARK 3 S11: -0.6029 S12: -0.0879 S13: 0.5857 REMARK 3 S21: 0.7093 S22: 0.8096 S23: -1.2280 REMARK 3 S31: -0.3079 S32: 0.7012 S33: -0.1454 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 334:600) REMARK 3 ORIGIN FOR THE GROUP (A): -61.6578 47.8413 62.7368 REMARK 3 T TENSOR REMARK 3 T11: 1.0181 T22: 1.2842 REMARK 3 T33: 0.7954 T12: -0.0300 REMARK 3 T13: -0.0062 T23: 0.2443 REMARK 3 L TENSOR REMARK 3 L11: 4.4484 L22: 1.4431 REMARK 3 L33: 1.6680 L12: 0.1996 REMARK 3 L13: -1.5201 L23: 1.5606 REMARK 3 S TENSOR REMARK 3 S11: 0.0987 S12: 0.4601 S13: 0.5550 REMARK 3 S21: 0.1421 S22: -0.1152 S23: 0.2253 REMARK 3 S31: 0.1277 S32: -1.0594 S33: -0.0641 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 7T72 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-DEC-21. REMARK 100 THE DEPOSITION ID IS D_1000261761. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-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) : 0.9536 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 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13965 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.177 REMARK 200 RESOLUTION RANGE LOW (A) : 49.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 16.80 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 16.60 REMARK 200 R MERGE FOR SHELL (I) : 1.13700 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 2.8.3 REMARK 200 STARTING MODEL: GENERIC FAB AND RBD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: EQUAL VOLUMES (2 UL) OF PROTEIN REMARK 280 SOLUTION (~5 MG/ML IN 25 MM TRIS (PH 8.0), 200 MM NACL) AND WELL REMARK 280 SOLUTION (100 MM CITRATE (PH 4.25), 500 MM LICL, 13% (W/V) REMARK 280 PEG6000) WERE COMBINED, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.24067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.62033 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 37.62033 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 75.24067 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 APPLY THE FOLLOWING TO CHAINS: L, H, A 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 GLY L 212 REMARK 465 GLU L 213 REMARK 465 CYS L 214 REMARK 465 SER H 136 REMARK 465 LYS H 137 REMARK 465 SER H 138 REMARK 465 THR H 139 REMARK 465 SER H 140 REMARK 465 GLY H 141 REMARK 465 SER H 223 REMARK 465 CYS H 224 REMARK 465 GLY H 225 REMARK 465 SER H 226 REMARK 465 HIS H 227 REMARK 465 HIS H 228 REMARK 465 HIS H 229 REMARK 465 HIS H 230 REMARK 465 HIS H 231 REMARK 465 HIS H 232 REMARK 465 THR A 333 REMARK 465 PRO A 521 REMARK 465 ALA A 522 REMARK 465 LYS A 528 REMARK 465 GLY A 529 REMARK 465 SER A 530 REMARK 465 HIS A 531 REMARK 465 HIS A 532 REMARK 465 HIS A 533 REMARK 465 HIS A 534 REMARK 465 HIS A 535 REMARK 465 HIS A 536 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 GLN L 3 CG CD OE1 NE2 REMARK 470 LYS L 31 CG CD CE NZ REMARK 470 LYS L 39 CG CD CE NZ REMARK 470 LYS L 42 CG CD CE NZ REMARK 470 LYS L 45 CG CD CE NZ REMARK 470 LYS L 103 CG CD CE NZ REMARK 470 LEU L 106 CG CD1 CD2 REMARK 470 LYS L 107 CG CD CE NZ REMARK 470 LYS L 126 CG CD CE NZ REMARK 470 LYS L 145 CG CD CE NZ REMARK 470 LYS L 149 CG CD CE NZ REMARK 470 LEU L 154 CG CD1 CD2 REMARK 470 LYS L 169 CG CD CE NZ REMARK 470 LYS L 183 CG CD CE NZ REMARK 470 GLU L 187 CG CD OE1 OE2 REMARK 470 LYS L 188 CG CD CE NZ REMARK 470 LYS L 190 CG CD CE NZ REMARK 470 ASN L 210 CG OD1 ND2 REMARK 470 GLU H 1 CG CD OE1 OE2 REMARK 470 GLN H 3 CG CD OE1 NE2 REMARK 470 ASP H 10 CG OD1 OD2 REMARK 470 LEU H 11 CG CD1 CD2 REMARK 470 ARG H 19 CG CD NE CZ NH1 NH2 REMARK 470 ARG H 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG H 43 CG CD NE CZ NH1 NH2 REMARK 470 ILE H 51 CG1 CG2 CD1 REMARK 470 LYS H 64 CG CD CE NZ REMARK 470 LYS H 75 CG CD CE NZ REMARK 470 SER H 121 OG REMARK 470 SER H 123 OG REMARK 470 LYS H 125 CG CD CE NZ REMARK 470 LYS H 151 CG CD CE NZ REMARK 470 PHE H 154 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU H 156 CG CD OE1 OE2 REMARK 470 THR H 168 OG1 CG2 REMARK 470 GLN H 179 CG CD OE1 NE2 REMARK 470 LEU H 183 CG CD1 CD2 REMARK 470 TYR H 184 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 VAL H 192 CG1 CG2 REMARK 470 LEU H 197 CG CD1 CD2 REMARK 470 THR H 201 OG1 CG2 REMARK 470 ILE H 203 CG1 CG2 CD1 REMARK 470 LYS H 209 CG CD CE NZ REMARK 470 LYS H 214 CG CD CE NZ REMARK 470 ASP H 216 CG OD1 OD2 REMARK 470 LYS H 217 CG CD CE NZ REMARK 470 LYS H 218 CG CD CE NZ REMARK 470 GLU H 220 CG CD OE1 OE2 REMARK 470 LYS H 222 O CG CD CE NZ REMARK 470 ASN A 334 CG OD1 ND2 REMARK 470 LEU A 335 CG CD1 CD2 REMARK 470 GLU A 340 CG CD OE1 OE2 REMARK 470 ARG A 355 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 356 CG CD CE NZ REMARK 470 ILE A 358 CG1 CG2 CD1 REMARK 470 ASP A 364 CG OD1 OD2 REMARK 470 SER A 366 OG REMARK 470 TYR A 369 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 370 CG OD1 ND2 REMARK 470 SER A 383 OG REMARK 470 THR A 385 OG1 CG2 REMARK 470 LYS A 386 CG CD CE NZ REMARK 470 ASP A 389 CG OD1 OD2 REMARK 470 LEU A 390 CG CD1 CD2 REMARK 470 PHE A 392 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 394 CG OD1 ND2 REMARK 470 GLN A 414 CG CD OE1 NE2 REMARK 470 LYS A 424 CG CD CE NZ REMARK 470 LYS A 444 CG CD CE NZ REMARK 470 TYR A 449 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 458 CG CD CE NZ REMARK 470 LYS A 462 CG CD CE NZ REMARK 470 GLU A 471 CG CD OE1 OE2 REMARK 470 GLN A 474 CG CD OE1 NE2 REMARK 470 SER A 477 OG REMARK 470 THR A 478 OG1 CG2 REMARK 470 GLU A 516 CG CD OE1 OE2 REMARK 470 LEU A 517 CG CD1 CD2 REMARK 470 LEU A 518 CG CD1 CD2 REMARK 470 HIS A 519 CG ND1 CD2 CE1 NE2 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 OG SER H 74 O GLY A 526 5666 2.14 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 ASN L 30 -127.21 57.75 REMARK 500 LEU L 47 -60.38 -109.19 REMARK 500 ALA L 51 -12.59 68.50 REMARK 500 SER L 52 -40.26 -143.57 REMARK 500 ALA L 84 -160.30 -164.31 REMARK 500 TYR L 91 13.80 -146.71 REMARK 500 ARG L 108 -165.07 -104.44 REMARK 500 ASN L 138 89.50 58.55 REMARK 500 LYS L 169 -90.41 -83.33 REMARK 500 HIS L 189 -152.19 -140.92 REMARK 500 LYS L 190 -71.94 -151.45 REMARK 500 CYS H 22 85.78 -150.94 REMARK 500 VAL H 48 -64.36 -108.42 REMARK 500 PRO H 53 97.42 -66.47 REMARK 500 SER H 74 -70.87 -62.81 REMARK 500 ALA H 91 -179.88 -174.61 REMARK 500 SER H 101 66.03 -160.66 REMARK 500 THR H 102 -117.18 -74.62 REMARK 500 SER H 120 -20.19 -153.38 REMARK 500 SER H 121 81.79 59.81 REMARK 500 THR H 143 -157.44 -95.52 REMARK 500 ASP H 152 83.46 57.87 REMARK 500 SER H 196 6.83 -69.28 REMARK 500 LEU H 197 109.65 -59.78 REMARK 500 PHE A 347 -156.76 -115.36 REMARK 500 LEU A 387 -39.90 -20.56 REMARK 500 ASN A 394 141.65 66.91 REMARK 500 ASN A 422 -58.60 -124.79 REMARK 500 ASP A 428 33.48 -99.69 REMARK 500 LEU A 518 -141.22 -163.98 REMARK 500 REMARK 500 REMARK: NULL DBREF 7T72 L 1 214 PDB 7T72 7T72 1 214 DBREF 7T72 H 1 232 PDB 7T72 7T72 1 232 DBREF 7T72 A 333 528 UNP P0DTC2 SPIKE_SARS2 333 528 SEQADV 7T72 GLY A 529 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 SER A 530 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 531 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 532 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 533 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 534 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 535 UNP P0DTC2 EXPRESSION TAG SEQADV 7T72 HIS A 536 UNP P0DTC2 EXPRESSION TAG SEQRES 1 L 214 ASP ILE GLN MET THR GLN SER PRO SER ALA LEU SER ALA SEQRES 2 L 214 SER VAL GLY ASP ARG VAL THR ILE THR CYS GLN ALA SER SEQRES 3 L 214 GLN ASP ILE ASN LYS PHE LEU ASN TRP TYR GLN GLN LYS SEQRES 4 L 214 PRO GLY LYS ALA PRO LYS LEU LEU ILE TYR ASP ALA SER SEQRES 5 L 214 ASN LEU GLU THR GLY VAL PRO SER ARG PHE SER GLY GLY SEQRES 6 L 214 GLY SER GLY THR ASP PHE THR PHE THR ILE SER SER LEU SEQRES 7 L 214 GLN PRO GLU ASP ILE ALA THR TYR TYR CYS HIS GLN TYR SEQRES 8 L 214 ASP ASN LEU PRO ARG THR PHE GLY GLN GLY THR LYS VAL SEQRES 9 L 214 GLU LEU LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 214 PHE ASN ARG GLY GLU CYS SEQRES 1 H 232 GLU VAL GLN LEU VAL GLN SER GLY GLY ASP LEU VAL GLN SEQRES 2 H 232 PRO GLY GLY SER LEU ARG LEU SER CYS ALA VAL SER GLY SEQRES 3 H 232 PHE THR VAL SER ARG ASN TYR MET THR TRP VAL ARG GLN SEQRES 4 H 232 ALA PRO GLY ARG GLY LEU GLU TRP VAL SER LEU ILE TYR SEQRES 5 H 232 PRO GLY GLY SER ALA PHE TYR ALA ASP SER VAL LYS GLY SEQRES 6 H 232 ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR LEU SEQRES 7 H 232 TYR LEU GLN MET ASN SER LEU ARG VAL GLU ASP THR ALA SEQRES 8 H 232 VAL TYR TYR CYS ALA ARG ASP PRO VAL SER THR GLY HIS SEQRES 9 H 232 TYR HIS ASP SER ASP TYR TRP GLY GLN GLY THR LEU VAL SEQRES 10 H 232 THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE SEQRES 11 H 232 PRO LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR SEQRES 12 H 232 ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU SEQRES 13 H 232 PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER SEQRES 14 H 232 GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY SEQRES 15 H 232 LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SEQRES 16 H 232 SER LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS SEQRES 17 H 232 LYS PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO SEQRES 18 H 232 LYS SER CYS GLY SER HIS HIS HIS HIS HIS HIS SEQRES 1 A 204 THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA THR SEQRES 2 A 204 ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE SEQRES 3 A 204 SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SER SEQRES 4 A 204 ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER PRO SEQRES 5 A 204 THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA SEQRES 6 A 204 ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN ILE SEQRES 7 A 204 ALA PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN TYR SEQRES 8 A 204 LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP SEQRES 9 A 204 ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN TYR SEQRES 10 A 204 ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU LYS SEQRES 11 A 204 PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA SEQRES 12 A 204 GLY SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN CYS SEQRES 13 A 204 TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR ASN SEQRES 14 A 204 GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SER SEQRES 15 A 204 PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY PRO SEQRES 16 A 204 LYS GLY SER HIS HIS HIS HIS HIS HIS HET NAG A 600 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 FORMUL 4 NAG C8 H15 N O6 HELIX 1 AA1 GLN L 79 ILE L 83 5 5 HELIX 2 AA2 SER L 121 GLY L 128 1 8 HELIX 3 AA3 LYS L 183 LYS L 188 1 6 HELIX 4 AA4 THR H 28 ASN H 32 5 5 HELIX 5 AA5 ARG H 86 THR H 90 5 5 HELIX 6 AA6 SER H 164 ALA H 166 5 3 HELIX 7 AA7 PRO H 193 LEU H 197 5 5 HELIX 8 AA8 PRO A 337 ASN A 343 1 7 HELIX 9 AA9 SER A 349 TRP A 353 5 5 HELIX 10 AB1 ASP A 364 ASN A 370 1 7 HELIX 11 AB2 ASP A 405 ILE A 410 5 6 HELIX 12 AB3 GLY A 416 ASN A 422 1 7 HELIX 13 AB4 SER A 438 SER A 443 1 6 HELIX 14 AB5 GLY A 502 TYR A 505 5 4 SHEET 1 AA1 4 MET L 4 SER L 7 0 SHEET 2 AA1 4 VAL L 19 ALA L 25 -1 O GLN L 24 N THR L 5 SHEET 3 AA1 4 ASP L 70 ILE L 75 -1 O PHE L 73 N ILE L 21 SHEET 4 AA1 4 PHE L 62 GLY L 66 -1 N GLY L 65 O THR L 72 SHEET 1 AA2 6 ALA L 10 ALA L 13 0 SHEET 2 AA2 6 THR L 102 LEU L 106 1 O GLU L 105 N ALA L 13 SHEET 3 AA2 6 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA2 6 LEU L 33 GLN L 38 -1 N TYR L 36 O TYR L 87 SHEET 5 AA2 6 LYS L 45 TYR L 49 -1 O LYS L 45 N GLN L 37 SHEET 6 AA2 6 ASN L 53 LEU L 54 -1 O ASN L 53 N TYR L 49 SHEET 1 AA3 4 ALA L 10 ALA L 13 0 SHEET 2 AA3 4 THR L 102 LEU L 106 1 O GLU L 105 N ALA L 13 SHEET 3 AA3 4 THR L 85 GLN L 90 -1 N TYR L 86 O THR L 102 SHEET 4 AA3 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AA4 4 SER L 114 PHE L 118 0 SHEET 2 AA4 4 THR L 129 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 AA4 4 TYR L 173 SER L 182 -1 O LEU L 181 N ALA L 130 SHEET 4 AA4 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AA5 3 ALA L 144 VAL L 150 0 SHEET 2 AA5 3 VAL L 191 HIS L 198 -1 O ALA L 193 N LYS L 149 SHEET 3 AA5 3 VAL L 205 ASN L 210 -1 O PHE L 209 N TYR L 192 SHEET 1 AA6 4 GLN H 3 SER H 7 0 SHEET 2 AA6 4 SER H 17 SER H 25 -1 O SER H 21 N SER H 7 SHEET 3 AA6 4 THR H 77 ASN H 83 -1 O MET H 82 N LEU H 18 SHEET 4 AA6 4 PHE H 67 ASP H 72 -1 N ASP H 72 O THR H 77 SHEET 1 AA7 6 LEU H 11 VAL H 12 0 SHEET 2 AA7 6 THR H 115 VAL H 119 1 O THR H 118 N VAL H 12 SHEET 3 AA7 6 ALA H 91 ALA H 96 -1 N TYR H 93 O THR H 115 SHEET 4 AA7 6 MET H 34 GLN H 39 -1 N THR H 35 O ALA H 96 SHEET 5 AA7 6 LEU H 45 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 AA7 6 ALA H 57 TYR H 59 -1 O PHE H 58 N LEU H 50 SHEET 1 AA8 4 SER H 128 LEU H 132 0 SHEET 2 AA8 4 ALA H 144 TYR H 153 -1 O LYS H 151 N SER H 128 SHEET 3 AA8 4 TYR H 184 VAL H 192 -1 O LEU H 186 N VAL H 150 SHEET 4 AA8 4 VAL H 171 THR H 173 -1 N HIS H 172 O VAL H 189 SHEET 1 AA9 4 SER H 128 LEU H 132 0 SHEET 2 AA9 4 ALA H 144 TYR H 153 -1 O LYS H 151 N SER H 128 SHEET 3 AA9 4 TYR H 184 VAL H 192 -1 O LEU H 186 N VAL H 150 SHEET 4 AA9 4 VAL H 177 LEU H 178 -1 N VAL H 177 O SER H 185 SHEET 1 AB1 3 THR H 159 TRP H 162 0 SHEET 2 AB1 3 ILE H 203 HIS H 208 -1 O ASN H 207 N THR H 159 SHEET 3 AB1 3 THR H 213 LYS H 218 -1 O VAL H 215 N VAL H 206 SHEET 1 AB2 5 ASN A 354 ILE A 358 0 SHEET 2 AB2 5 VAL A 395 ARG A 403 -1 O VAL A 395 N ILE A 358 SHEET 3 AB2 5 PRO A 507 PHE A 515 -1 O TYR A 508 N ILE A 402 SHEET 4 AB2 5 GLY A 431 ASN A 437 -1 N ILE A 434 O VAL A 511 SHEET 5 AB2 5 THR A 376 TYR A 380 -1 N LYS A 378 O VAL A 433 SHEET 1 AB3 2 CYS A 361 VAL A 362 0 SHEET 2 AB3 2 VAL A 524 CYS A 525 1 O CYS A 525 N CYS A 361 SHEET 1 AB4 2 LEU A 452 ARG A 454 0 SHEET 2 AB4 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AB5 2 TYR A 473 GLN A 474 0 SHEET 2 AB5 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.03 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.03 SSBOND 3 CYS H 22 CYS H 95 1555 1555 2.03 SSBOND 4 CYS H 148 CYS H 204 1555 1555 2.03 SSBOND 5 CYS A 336 CYS A 361 1555 1555 2.04 SSBOND 6 CYS A 379 CYS A 432 1555 1555 2.04 SSBOND 7 CYS A 391 CYS A 525 1555 1555 2.04 SSBOND 8 CYS A 480 CYS A 488 1555 1555 2.03 LINK ND2 ASN A 343 C1 NAG A 600 1555 1555 1.44 CISPEP 1 SER L 7 PRO L 8 0 1.32 CISPEP 2 LEU L 94 PRO L 95 0 1.77 CISPEP 3 TYR L 140 PRO L 141 0 6.30 CISPEP 4 PHE H 154 PRO H 155 0 -4.82 CISPEP 5 GLU H 156 PRO H 157 0 -4.06 CRYST1 111.294 111.294 112.861 90.00 90.00 120.00 P 32 2 1 6 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 0.008985 0.005188 0.000000 0.00000 SCALE2 0.000000 0.010375 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008860 0.00000