HEADER IMMUNE SYSTEM 19-MAY-22 8CWI TITLE FAB ARM OF ANTIBODY 10G4 BOUND TO COV-2 RECEPTOR BINDING DOMAIN (RBD) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RECEPTOR BINDING DOMAIN (RBD); COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HEAVY CHAIN OF FAB ARM OF ANTIBODY 10G4; COMPND 8 CHAIN: H; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: LIGHT CHAIN OF FAB ARM OF ANTIBODY 10G4; COMPND 12 CHAIN: L; COMPND 13 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: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: EXPICHO; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 15 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: EXPICHO; SOURCE 18 MOL_ID: 3; SOURCE 19 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 20 ORGANISM_COMMON: HUMAN; SOURCE 21 ORGANISM_TAXID: 9606; SOURCE 22 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 23 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 25 EXPRESSION_SYSTEM_CELL_LINE: EXPICHO KEYWDS ANTIBODY, COV-2, RECEPTOR BINDING DOMAIN, CLASS 5 EPITOPE, IMMUNE KEYWDS 2 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR D.B.LANGLEY,D.CHRIST REVDAT 2 03-APR-24 8CWI 1 REMARK REVDAT 1 24-MAY-23 8CWI 0 JRNL AUTH D.B.LANGLEY,D.CHRIST JRNL TITL NEUTRALIZATION OF COV-2 OMICRON LINEAGES BY AFFINITY-MATURED JRNL TITL 2 CLASS 5 ANTIBODIES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.87 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 1.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 61439 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 3038 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 46.5620 - 5.2464 0.99 2761 148 0.1649 0.1543 REMARK 3 2 5.2464 - 4.1651 1.00 2717 129 0.1239 0.1501 REMARK 3 3 4.1651 - 3.6388 0.99 2687 151 0.1476 0.1824 REMARK 3 4 3.6388 - 3.3062 0.99 2681 147 0.1653 0.1995 REMARK 3 5 3.3062 - 3.0693 0.99 2680 136 0.1797 0.2220 REMARK 3 6 3.0693 - 2.8884 0.99 2708 119 0.1832 0.2364 REMARK 3 7 2.8884 - 2.7437 0.99 2652 137 0.1906 0.2181 REMARK 3 8 2.7437 - 2.6243 0.99 2678 147 0.1832 0.2580 REMARK 3 9 2.6243 - 2.5233 0.99 2631 138 0.1805 0.2203 REMARK 3 10 2.5233 - 2.4362 0.98 2652 158 0.1780 0.2488 REMARK 3 11 2.4362 - 2.3600 0.98 2643 135 0.1819 0.2226 REMARK 3 12 2.3600 - 2.2926 0.98 2669 140 0.1803 0.1895 REMARK 3 13 2.2926 - 2.2322 0.98 2633 142 0.1773 0.2453 REMARK 3 14 2.2322 - 2.1778 0.98 2624 153 0.1813 0.2377 REMARK 3 15 2.1778 - 2.1283 0.98 2668 121 0.1855 0.2317 REMARK 3 16 2.1283 - 2.0830 0.98 2603 132 0.1916 0.2510 REMARK 3 17 2.0830 - 2.0413 0.98 2648 133 0.1929 0.2355 REMARK 3 18 2.0413 - 2.0028 0.98 2632 131 0.1926 0.2556 REMARK 3 19 2.0028 - 1.9670 0.98 2651 135 0.1975 0.2424 REMARK 3 20 1.9670 - 1.9337 0.98 2597 121 0.2066 0.2730 REMARK 3 21 1.9337 - 1.9025 0.98 2615 166 0.2242 0.2256 REMARK 3 22 1.9025 - 1.8732 0.96 2571 119 0.2424 0.2660 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.18 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 : 0.006 5144 REMARK 3 ANGLE : 0.851 7043 REMARK 3 CHIRALITY : 0.053 796 REMARK 3 PLANARITY : 0.005 901 REMARK 3 DIHEDRAL : 8.424 4061 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -19.2869 37.1190 21.3969 REMARK 3 T TENSOR REMARK 3 T11: 0.2319 T22: 0.1714 REMARK 3 T33: 0.1750 T12: -0.0177 REMARK 3 T13: -0.0228 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.3338 L22: 0.4751 REMARK 3 L33: 0.1956 L12: -0.2387 REMARK 3 L13: 0.0242 L23: 0.0765 REMARK 3 S TENSOR REMARK 3 S11: 0.0128 S12: 0.0474 S13: 0.0140 REMARK 3 S21: -0.0458 S22: -0.0396 S23: 0.0307 REMARK 3 S31: -0.0486 S32: -0.0148 S33: 0.0251 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 8CWI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1000265355. 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 : 5 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) : 0.953651 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 : 61471 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.870 REMARK 200 RESOLUTION RANGE LOW (A) : 46.562 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 0.75100 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 (%): 54.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: EQUAL VOLUMES (0.4 UL) OF PROTEIN REMARK 280 SOLUTION (~5 MG/ML IN 25 MM TRIS (PH 8.0), 200 MM NACL) WERE REMARK 280 COMBINED WITH WELL SOLUTION (200 MM MGCL2, 100 MM SODIUM ACETATE REMARK 280 (PH 5.0), 20 % (W/V) PEG6000) IN A SITTING DROP FORMAT., VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 44.31950 REMARK 290 SMTRY3 2 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: 7240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L, 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 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 THR A 333 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 465 SER H 219 REMARK 465 CYS H 220 REMARK 465 GLY H 221 REMARK 465 SER H 222 REMARK 465 HIS H 223 REMARK 465 HIS H 224 REMARK 465 HIS H 225 REMARK 465 HIS H 226 REMARK 465 HIS H 227 REMARK 465 HIS H 228 REMARK 465 SER L 215 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 ASN A 334 CG OD1 ND2 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 528 CG CD CE NZ REMARK 470 SER H 132 OG REMARK 470 LYS H 133 CG CD CE NZ REMARK 470 SER H 136 OG REMARK 470 LYS H 210 CG CD CE NZ REMARK 470 GLU L 70 CG CD OE1 OE2 REMARK 470 LYS L 126 CG CD CE NZ REMARK 470 LYS L 145 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 O HOH H 643 O HOH H 649 2.18 REMARK 500 O HOH A 837 O HOH A 892 2.19 REMARK 500 O HOH H 429 O HOH H 439 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 OE2 GLU A 516 O HOH H 601 2546 2.12 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 PRO A 337 47.16 -80.55 REMARK 500 VAL A 341 -60.31 -91.37 REMARK 500 ALA A 352 44.27 -109.39 REMARK 500 ASN A 422 -53.47 -125.03 REMARK 500 ASP A 428 37.79 -98.67 REMARK 500 TYR A 449 -31.87 68.12 REMARK 500 PHE A 497 108.65 -56.13 REMARK 500 SER H 56 -84.80 -81.87 REMARK 500 ALA H 92 160.80 177.85 REMARK 500 ASP H 148 64.52 64.96 REMARK 500 SER L 30 -130.90 57.36 REMARK 500 ALA L 51 -38.99 73.56 REMARK 500 SER L 67 147.01 -170.45 REMARK 500 SER L 77 70.02 38.72 REMARK 500 ALA L 84 174.87 174.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 928 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A 929 DISTANCE = 6.69 ANGSTROMS REMARK 525 HOH A 930 DISTANCE = 7.94 ANGSTROMS REMARK 525 HOH H 649 DISTANCE = 6.49 ANGSTROMS 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 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 705 O REMARK 620 2 HOH A 778 O 95.8 REMARK 620 3 HOH A 885 O 93.9 90.3 REMARK 620 4 HOH A 925 O 171.5 92.4 88.3 REMARK 620 5 HOH A 926 O 96.2 90.7 169.8 81.5 REMARK 620 6 HOH H 591 O 89.3 172.8 84.3 82.7 93.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG L 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH H 496 O REMARK 620 2 HOH H 607 O 93.8 REMARK 620 3 HOH H 615 O 85.6 85.4 REMARK 620 4 HOH L 455 O 91.9 93.0 176.9 REMARK 620 5 HOH L 579 O 87.5 171.9 86.8 94.9 REMARK 620 6 HOH L 588 O 176.8 84.2 91.8 90.7 94.1 REMARK 620 N 1 2 3 4 5 DBREF 8CWI A 333 528 UNP P0DTC2 SPIKE_SARS2 333 528 DBREF 8CWI H 1 228 PDB 8CWI 8CWI 1 228 DBREF 8CWI L 1 215 PDB 8CWI 8CWI 1 215 SEQADV 8CWI GLY A 529 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI SER A 530 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 531 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 532 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 533 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 534 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 535 UNP P0DTC2 EXPRESSION TAG SEQADV 8CWI HIS A 536 UNP P0DTC2 EXPRESSION TAG 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 SEQRES 1 H 228 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY VAL VAL GLN SEQRES 2 H 228 PRO GLY ARG SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 228 PHE THR PHE SER SER TYR GLY MET HIS TRP VAL ARG GLN SEQRES 4 H 228 ALA PRO GLY LYS GLY LEU GLU TRP VAL ALA VAL ILE TRP SEQRES 5 H 228 TYR ASP GLY SER ASP LYS TYR TYR ALA ASP SER VAL LYS SEQRES 6 H 228 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 H 228 LEU TYR LEU GLN ILE ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 H 228 ALA MET TYR TYR CYS ALA ARG GLU ALA THR ALA GLY PHE SEQRES 9 H 228 ASP TYR TRP GLY GLN GLY ASN LEU VAL THR VAL SER SER SEQRES 10 H 228 ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SEQRES 11 H 228 SER SER LYS SER THR SER GLY GLY THR ALA ALA LEU GLY SEQRES 12 H 228 CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 H 228 SER TRP ASN SER GLY ALA LEU THR SER GLY VAL HIS THR SEQRES 14 H 228 PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SEQRES 15 H 228 SER SER VAL VAL THR VAL PRO SER SER SER LEU GLY THR SEQRES 16 H 228 GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN SEQRES 17 H 228 THR LYS VAL ASP LYS LYS VAL GLU PRO LYS SER CYS GLY SEQRES 18 H 228 SER HIS HIS HIS HIS HIS HIS SEQRES 1 L 215 ASN ILE GLN MET THR GLN SER PRO SER ALA MET SER ALA SEQRES 2 L 215 SER VAL GLY ASP ARG VAL THR ILE THR CYS ARG ALA ARG SEQRES 3 L 215 GLN ASP ILE SER SER TYR LEU ALA TRP PHE GLN GLN LYS SEQRES 4 L 215 PRO GLY LYS VAL PRO LYS HIS LEU ILE TYR ALA ALA SER SEQRES 5 L 215 THR LEU LEU SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 215 GLY SER GLY THR GLU PHE THR LEU THR ILE SER SER LEU SEQRES 7 L 215 GLN PRO GLU ASP PHE ALA THR TYR TYR CYS LEU GLN HIS SEQRES 8 L 215 ASN SER TYR PRO TYR THR PHE GLY GLN GLY THR LYS LEU SEQRES 9 L 215 GLU ILE ASN ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 215 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 215 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 215 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 215 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 215 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 215 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 215 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 215 PHE ASN ARG GLY GLU CYS SER HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET MAN B 4 11 HET MAN B 5 11 HET FUC B 6 10 HET NAG C 1 14 HET NAG C 2 14 HET FUC C 3 10 HET MG A 601 1 HET CL H 301 1 HET CL H 302 1 HET MG L 301 1 HET CL L 302 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 4 BMA C6 H12 O6 FORMUL 4 MAN 2(C6 H12 O6) FORMUL 4 FUC 2(C6 H12 O5) FORMUL 6 MG 2(MG 2+) FORMUL 7 CL 3(CL 1-) FORMUL 11 HOH *667(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 364 ASN A 370 1 7 HELIX 4 AA4 SER A 383 ASN A 388 5 6 HELIX 5 AA5 ASP A 405 ILE A 410 5 6 HELIX 6 AA6 GLY A 416 ASN A 422 1 7 HELIX 7 AA7 SER A 438 SER A 443 1 6 HELIX 8 AA8 GLY A 502 TYR A 505 5 4 HELIX 9 AA9 THR H 28 TYR H 32 5 5 HELIX 10 AB1 ASN H 74 LYS H 76 5 3 HELIX 11 AB2 ARG H 87 THR H 91 5 5 HELIX 12 AB3 SER H 160 ALA H 162 5 3 HELIX 13 AB4 SER H 191 GLN H 196 1 6 HELIX 14 AB5 LYS H 205 ASN H 208 5 4 HELIX 15 AB6 GLN L 79 PHE L 83 5 5 HELIX 16 AB7 SER L 121 SER L 127 1 7 HELIX 17 AB8 LYS L 183 HIS L 189 1 7 SHEET 1 AA1 5 ASN A 354 SER A 359 0 SHEET 2 AA1 5 ASN A 394 ARG A 403 -1 O ALA A 397 N LYS A 356 SHEET 3 AA1 5 PRO A 507 LEU A 517 -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 4 ASN A 354 SER A 359 0 SHEET 2 AA2 4 ASN A 394 ARG A 403 -1 O ALA A 397 N LYS A 356 SHEET 3 AA2 4 PRO A 507 LEU A 517 -1 O VAL A 512 N ASP A 398 SHEET 4 AA2 4 ALA A 520 PRO A 521 -1 O ALA A 520 N LEU A 517 SHEET 1 AA3 2 LEU A 390 CYS A 391 0 SHEET 2 AA3 2 THR A 523 VAL A 524 -1 O THR A 523 N CYS A 391 SHEET 1 AA4 2 LEU A 452 ARG A 454 0 SHEET 2 AA4 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AA5 2 TYR A 473 GLN A 474 0 SHEET 2 AA5 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SHEET 1 AA6 4 GLN H 3 SER H 7 0 SHEET 2 AA6 4 LEU H 18 SER H 25 -1 O ALA H 23 N VAL H 5 SHEET 3 AA6 4 THR H 78 ILE H 83 -1 O LEU H 81 N LEU H 20 SHEET 4 AA6 4 PHE H 68 ASP H 73 -1 N SER H 71 O TYR H 80 SHEET 1 AA7 6 GLY H 10 VAL H 12 0 SHEET 2 AA7 6 ASN H 111 VAL H 115 1 O THR H 114 N VAL H 12 SHEET 3 AA7 6 ALA H 92 ALA H 100 -1 N ALA H 92 O VAL H 113 SHEET 4 AA7 6 GLY H 33 GLN H 39 -1 N VAL H 37 O TYR H 95 SHEET 5 AA7 6 LEU H 45 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 AA7 6 LYS H 58 TYR H 60 -1 O TYR H 59 N VAL H 50 SHEET 1 AA8 4 GLY H 10 VAL H 12 0 SHEET 2 AA8 4 ASN H 111 VAL H 115 1 O THR H 114 N VAL H 12 SHEET 3 AA8 4 ALA H 92 ALA H 100 -1 N ALA H 92 O VAL H 113 SHEET 4 AA8 4 GLY H 103 TRP H 107 -1 O TYR H 106 N ARG H 98 SHEET 1 AA9 4 SER H 124 LEU H 128 0 SHEET 2 AA9 4 THR H 139 TYR H 149 -1 O LYS H 147 N SER H 124 SHEET 3 AA9 4 TYR H 180 PRO H 189 -1 O LEU H 182 N VAL H 146 SHEET 4 AA9 4 VAL H 167 THR H 169 -1 N HIS H 168 O VAL H 185 SHEET 1 AB1 4 SER H 124 LEU H 128 0 SHEET 2 AB1 4 THR H 139 TYR H 149 -1 O LYS H 147 N SER H 124 SHEET 3 AB1 4 TYR H 180 PRO H 189 -1 O LEU H 182 N VAL H 146 SHEET 4 AB1 4 VAL H 173 LEU H 174 -1 N VAL H 173 O SER H 181 SHEET 1 AB2 3 THR H 155 TRP H 158 0 SHEET 2 AB2 3 TYR H 198 HIS H 204 -1 O ASN H 201 N SER H 157 SHEET 3 AB2 3 THR H 209 VAL H 215 -1 O VAL H 215 N TYR H 198 SHEET 1 AB3 4 MET L 4 SER L 7 0 SHEET 2 AB3 4 VAL L 19 ALA L 25 -1 O THR L 22 N SER L 7 SHEET 3 AB3 4 GLU L 70 ILE L 75 -1 O LEU L 73 N ILE L 21 SHEET 4 AB3 4 PHE L 62 SER L 67 -1 N SER L 63 O THR L 74 SHEET 1 AB4 6 ALA L 10 ALA L 13 0 SHEET 2 AB4 6 THR L 102 ILE L 106 1 O GLU L 105 N MET L 11 SHEET 3 AB4 6 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AB4 6 LEU L 33 GLN L 38 -1 N ALA L 34 O LEU L 89 SHEET 5 AB4 6 LYS L 45 TYR L 49 -1 O LYS L 45 N GLN L 37 SHEET 6 AB4 6 THR L 53 LEU L 54 -1 O THR L 53 N TYR L 49 SHEET 1 AB5 4 ALA L 10 ALA L 13 0 SHEET 2 AB5 4 THR L 102 ILE L 106 1 O GLU L 105 N MET L 11 SHEET 3 AB5 4 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AB5 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB6 4 SER L 114 PHE L 118 0 SHEET 2 AB6 4 THR L 129 PHE L 139 -1 O LEU L 135 N PHE L 116 SHEET 3 AB6 4 TYR L 173 SER L 182 -1 O TYR L 173 N PHE L 139 SHEET 4 AB6 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AB7 4 ALA L 153 LEU L 154 0 SHEET 2 AB7 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB7 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 AB7 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SSBOND 1 CYS A 336 CYS A 361 1555 1555 2.02 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 2.07 SSBOND 5 CYS H 22 CYS H 96 1555 1555 2.10 SSBOND 6 CYS H 144 CYS H 200 1555 1555 2.04 SSBOND 7 CYS L 23 CYS L 88 1555 1555 2.06 SSBOND 8 CYS L 134 CYS L 194 1555 1555 2.03 LINK ND2 ASN A 343 C1 NAG B 1 1555 1555 1.44 LINK ND2 ASN L 107 C1 NAG C 1 1555 1555 1.43 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.43 LINK O6 NAG B 1 C1 FUC B 6 1555 1555 1.44 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.44 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.45 LINK O6 BMA B 3 C1 MAN B 5 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O6 NAG C 1 C1 FUC C 3 1555 1555 1.45 LINK MG MG A 601 O HOH A 705 1555 1555 2.25 LINK MG MG A 601 O HOH A 778 1555 1555 2.08 LINK MG MG A 601 O HOH A 885 1555 1555 2.05 LINK MG MG A 601 O HOH A 925 1555 1555 2.20 LINK MG MG A 601 O HOH A 926 1555 1555 2.21 LINK MG MG A 601 O HOH H 591 1555 2546 2.23 LINK O HOH H 496 MG MG L 301 1555 1555 2.23 LINK O HOH H 607 MG MG L 301 1555 1555 2.26 LINK O HOH H 615 MG MG L 301 1555 1555 2.31 LINK MG MG L 301 O HOH L 455 1555 1555 2.01 LINK MG MG L 301 O HOH L 579 1555 1555 2.20 LINK MG MG L 301 O HOH L 588 1555 1555 2.17 CISPEP 1 PHE H 150 PRO H 151 0 -8.69 CISPEP 2 GLU H 152 PRO H 153 0 -1.48 CISPEP 3 SER L 7 PRO L 8 0 -4.77 CISPEP 4 TYR L 94 PRO L 95 0 -0.61 CISPEP 5 TYR L 140 PRO L 141 0 3.51 CRYST1 53.691 88.639 81.398 90.00 95.03 90.00 P 1 21 1 2 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 0.018625 0.000000 0.001639 0.00000 SCALE2 0.000000 0.011282 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012333 0.00000