HEADER VIRAL PROTEIN 19-JUN-20 7CDI TITLE CRYSTAL STRUCTURE OF SARS-COV-2 ANTIBODY P2C-1F11 WITH RBD COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE PROTEIN S1; COMPND 3 CHAIN: E; COMPND 4 FRAGMENT: RECEPTOR BINDING DOMAIN; COMPND 5 SYNONYM: S GLYCOPROTEIN,E2,PEPLOMER PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ANTIBODY P2C-1F11 HEAVY CHAIN; COMPND 9 CHAIN: H; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: ANTIBODY P2C-1F11 LIGHT CHAIN; COMPND 13 CHAIN: L; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 GENE: S, 2; SOURCE 7 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 14 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 EXPRESSION_SYSTEM_CELL_LINE: HEK 293F; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 CELL_LINE: HEK 293F; SOURCE 22 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 23 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 25 EXPRESSION_SYSTEM_CELL_LINE: HEK 293F KEYWDS SPIKE, RECEPTOR BINDING DOMAIN, ANTIBODY, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR X.WANG,L.ZHANG,J.GE,R.WANG REVDAT 4 23-OCT-24 7CDI 1 REMARK REVDAT 3 29-NOV-23 7CDI 1 REMARK REVDAT 2 01-DEC-21 7CDI 1 JRNL REVDAT 1 18-NOV-20 7CDI 0 JRNL AUTH J.GE,R.WANG,B.JU,Q.ZHANG,J.SUN,P.CHEN,S.ZHANG,Y.TIAN,S.SHAN, JRNL AUTH 2 L.CHENG,B.ZHOU,S.SONG,J.ZHAO,H.WANG,X.SHI,Q.DING,L.LIU, JRNL AUTH 3 J.ZHAO,Z.ZHANG,X.WANG,L.ZHANG JRNL TITL ANTIBODY NEUTRALIZATION OF SARS-COV-2 THROUGH ACE2 RECEPTOR JRNL TITL 2 MIMICRY. JRNL REF NAT COMMUN V. 12 250 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33431856 JRNL DOI 10.1038/S41467-020-20501-9 REMARK 2 REMARK 2 RESOLUTION. 2.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15_3459 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) : 2.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 19765 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 987 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 33.9739 - 5.6549 0.99 2739 141 0.1783 0.2301 REMARK 3 2 5.6549 - 4.4917 1.00 2675 143 0.1599 0.2195 REMARK 3 3 4.4917 - 3.9249 1.00 2684 143 0.1779 0.2192 REMARK 3 4 3.9249 - 3.5665 1.00 2701 145 0.2235 0.2710 REMARK 3 5 3.5665 - 3.3111 1.00 2668 133 0.2479 0.3101 REMARK 3 6 3.3111 - 3.1160 1.00 2682 134 0.2649 0.3172 REMARK 3 7 3.1160 - 2.9600 1.00 2629 148 0.2980 0.3315 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) : 0.410 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.99 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 : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN E REMARK 3 ORIGIN FOR THE GROUP (A): -29.7427 0.3095 15.3156 REMARK 3 T TENSOR REMARK 3 T11: 0.5265 T22: 0.5825 REMARK 3 T33: 0.4404 T12: 0.0805 REMARK 3 T13: 0.0345 T23: 0.0397 REMARK 3 L TENSOR REMARK 3 L11: 6.6161 L22: 4.6256 REMARK 3 L33: 3.2835 L12: -0.6356 REMARK 3 L13: -0.7275 L23: -0.8040 REMARK 3 S TENSOR REMARK 3 S11: 0.2363 S12: 0.8082 S13: 0.0897 REMARK 3 S21: -0.3279 S22: -0.3244 S23: -0.6343 REMARK 3 S31: -0.2175 S32: 0.5341 S33: 0.0544 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN H AND RESID 2:118 REMARK 3 ORIGIN FOR THE GROUP (A): -55.7437 -3.3746 35.3652 REMARK 3 T TENSOR REMARK 3 T11: 0.5169 T22: 0.4357 REMARK 3 T33: 0.5142 T12: 0.0850 REMARK 3 T13: -0.0008 T23: 0.1429 REMARK 3 L TENSOR REMARK 3 L11: 5.3776 L22: 1.2217 REMARK 3 L33: 4.3077 L12: -0.2912 REMARK 3 L13: 0.0661 L23: 0.0120 REMARK 3 S TENSOR REMARK 3 S11: -0.2102 S12: -0.8496 S13: -0.7406 REMARK 3 S21: 0.3603 S22: 0.2669 S23: 0.0894 REMARK 3 S31: 0.3587 S32: -0.2628 S33: -0.0890 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN H AND RESID 119:217 REMARK 3 ORIGIN FOR THE GROUP (A): -89.5961 4.9718 44.8038 REMARK 3 T TENSOR REMARK 3 T11: 0.5826 T22: 0.8035 REMARK 3 T33: 0.8006 T12: 0.0577 REMARK 3 T13: 0.0876 T23: 0.3713 REMARK 3 L TENSOR REMARK 3 L11: 1.7807 L22: 2.1659 REMARK 3 L33: 4.5726 L12: -1.1391 REMARK 3 L13: 1.1168 L23: 0.4225 REMARK 3 S TENSOR REMARK 3 S11: -0.1424 S12: -1.1467 S13: -0.9799 REMARK 3 S21: 0.4243 S22: 0.2209 S23: 0.6113 REMARK 3 S31: 0.4036 S32: 0.0068 S33: -0.1101 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN L AND RESID 1:108 REMARK 3 ORIGIN FOR THE GROUP (A): -66.1828 1.4982 15.5007 REMARK 3 T TENSOR REMARK 3 T11: 0.5705 T22: 0.4628 REMARK 3 T33: 0.4113 T12: 0.0440 REMARK 3 T13: -0.0788 T23: -0.1057 REMARK 3 L TENSOR REMARK 3 L11: 7.2676 L22: 2.8010 REMARK 3 L33: 3.1505 L12: -3.2942 REMARK 3 L13: 0.0301 L23: -0.8513 REMARK 3 S TENSOR REMARK 3 S11: 0.2369 S12: 0.9408 S13: -0.8998 REMARK 3 S21: -0.5324 S22: -0.2326 S23: 0.4642 REMARK 3 S31: 0.2138 S32: -0.1820 S33: 0.0494 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN L AND RESID 109:214 REMARK 3 ORIGIN FOR THE GROUP (A): -88.7005 19.2027 36.3846 REMARK 3 T TENSOR REMARK 3 T11: 0.3574 T22: 0.5106 REMARK 3 T33: 0.4070 T12: -0.0482 REMARK 3 T13: 0.0253 T23: 0.1993 REMARK 3 L TENSOR REMARK 3 L11: 4.2692 L22: 5.1604 REMARK 3 L33: 4.2388 L12: -1.2926 REMARK 3 L13: -0.4077 L23: 2.3183 REMARK 3 S TENSOR REMARK 3 S11: -0.0628 S12: -0.6110 S13: -0.1541 REMARK 3 S21: 0.1724 S22: 0.1784 S23: 0.2191 REMARK 3 S31: -0.0838 S32: 0.1888 S33: -0.0825 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 7CDI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1300017395. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-20 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 : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9796 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 : 19785 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.960 REMARK 200 RESOLUTION RANGE LOW (A) : 34.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.15500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.99700 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: 6M0J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, PH 5.8, 20% PEG 6000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 97.44000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.69500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 97.44000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.69500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, H, L REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ARG E 319 REMARK 465 VAL E 320 REMARK 465 GLN E 321 REMARK 465 PRO E 322 REMARK 465 THR E 323 REMARK 465 GLU E 324 REMARK 465 SER E 325 REMARK 465 ILE E 326 REMARK 465 VAL E 327 REMARK 465 ARG E 328 REMARK 465 PHE E 329 REMARK 465 PRO E 330 REMARK 465 ASN E 331 REMARK 465 ILE E 332 REMARK 465 LEU E 517 REMARK 465 LEU E 518 REMARK 465 HIS E 519 REMARK 465 PRO E 527 REMARK 465 LYS E 528 REMARK 465 LYS E 529 REMARK 465 HIS E 530 REMARK 465 HIS E 531 REMARK 465 HIS E 532 REMARK 465 HIS E 533 REMARK 465 HIS E 534 REMARK 465 HIS E 535 REMARK 465 GLU H 1 REMARK 465 SER H 132 REMARK 465 LYS H 133 REMARK 465 SER H 134 REMARK 465 THR H 135 REMARK 465 SER H 136 REMARK 465 GLY H 137 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 GLY H 138 N CA 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 OG SER E 371 OG SER E 373 2.18 REMARK 500 OD1 ASN E 487 NH1 ARG H 97 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA E 352 56.83 -115.66 REMARK 500 PHE E 377 85.60 -156.20 REMARK 500 ASP E 389 46.93 -96.91 REMARK 500 ILE E 402 -163.03 -125.66 REMARK 500 ASP E 405 -39.26 -34.32 REMARK 500 ASN E 422 -54.59 -129.79 REMARK 500 ASP E 428 30.04 -85.08 REMARK 500 THR E 523 2.65 -151.78 REMARK 500 LEU H 18 143.95 -174.46 REMARK 500 ALA H 91 -179.07 -170.01 REMARK 500 VAL H 100 -72.92 52.74 REMARK 500 ASP H 148 70.27 66.87 REMARK 500 THR H 164 -35.37 -135.14 REMARK 500 SER H 181 139.34 -171.59 REMARK 500 ASN L 138 73.91 35.88 REMARK 500 GLU L 187 2.64 -63.63 REMARK 500 REMARK 500 REMARK: NULL DBREF 7CDI E 319 529 UNP P0DTC2 SPIKE_SARS2 319 529 DBREF 7CDI H 1 217 PDB 7CDI 7CDI 1 217 DBREF 7CDI L 1 214 PDB 7CDI 7CDI 1 214 SEQADV 7CDI HIS E 530 UNP P0DTC2 EXPRESSION TAG SEQADV 7CDI HIS E 531 UNP P0DTC2 EXPRESSION TAG SEQADV 7CDI HIS E 532 UNP P0DTC2 EXPRESSION TAG SEQADV 7CDI HIS E 533 UNP P0DTC2 EXPRESSION TAG SEQADV 7CDI HIS E 534 UNP P0DTC2 EXPRESSION TAG SEQADV 7CDI HIS E 535 UNP P0DTC2 EXPRESSION TAG SEQRES 1 E 217 ARG VAL GLN PRO THR GLU SER ILE VAL ARG PHE PRO ASN SEQRES 2 E 217 ILE THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA SEQRES 3 E 217 THR ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG SEQRES 4 E 217 ILE SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SEQRES 5 E 217 SER ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER SEQRES 6 E 217 PRO THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR SEQRES 7 E 217 ALA ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN SEQRES 8 E 217 ILE ALA PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN SEQRES 9 E 217 TYR LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA SEQRES 10 E 217 TRP ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN SEQRES 11 E 217 TYR ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU SEQRES 12 E 217 LYS PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN SEQRES 13 E 217 ALA GLY SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN SEQRES 14 E 217 CYS TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR SEQRES 15 E 217 ASN GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SEQRES 16 E 217 SER PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY SEQRES 17 E 217 PRO LYS LYS HIS HIS HIS HIS HIS HIS SEQRES 1 H 217 GLU VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 217 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 217 ILE THR VAL SER SER ASN TYR MET ASN TRP VAL ARG GLN SEQRES 4 H 217 ALA PRO GLY LYS GLY LEU GLU TRP VAL SER LEU ILE TYR SEQRES 5 H 217 SER GLY GLY SER THR TYR TYR ALA ASP SER VAL LYS GLY SEQRES 6 H 217 ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR LEU SEQRES 7 H 217 TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR ALA SEQRES 8 H 217 VAL TYR HIS CYS ALA ARG ASP LEU VAL VAL TYR GLY MET SEQRES 9 H 217 ASP VAL TRP GLY GLN GLY THR THR VAL THR VAL SER SER SEQRES 10 H 217 ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU ALA PRO SEQRES 11 H 217 SER SER LYS SER THR SER GLY GLY THR ALA ALA LEU GLY SEQRES 12 H 217 CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 H 217 SER TRP ASN SER GLY ALA LEU THR SER GLY VAL HIS THR SEQRES 14 H 217 PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SER LEU SEQRES 15 H 217 SER SER VAL VAL THR VAL PRO SER SER SER LEU GLY THR SEQRES 16 H 217 GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SER ASN SEQRES 17 H 217 THR LYS VAL ASP LYS LYS VAL GLU PRO SEQRES 1 L 214 GLU ILE VAL LEU THR GLN SER PRO GLY THR LEU SER LEU SEQRES 2 L 214 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 L 214 GLN SER VAL SER SER SER TYR LEU ALA TRP TYR GLN GLN SEQRES 4 L 214 LYS PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR GLY ALA SEQRES 5 L 214 SER SER ARG ALA THR GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 214 SER GLY SER GLY THR ASP PHE THR LEU THR ILE SER ARG SEQRES 7 L 214 LEU GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN SEQRES 8 L 214 TYR GLY SER SER PRO THR PHE GLY GLN GLY THR LYS LEU SEQRES 9 L 214 GLU ILE 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 HET NAG E 601 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 PRO E 337 ASN E 343 1 7 HELIX 2 AA2 SER E 349 TRP E 353 5 5 HELIX 3 AA3 TYR E 365 ASN E 370 1 6 HELIX 4 AA4 ASP E 405 ILE E 410 5 6 HELIX 5 AA5 GLY E 416 ASN E 422 1 7 HELIX 6 AA6 SER E 438 SER E 443 1 6 HELIX 7 AA7 GLY E 502 TYR E 505 5 4 HELIX 8 AA8 THR H 28 ASN H 32 5 5 HELIX 9 AA9 ASN H 73 LYS H 75 5 3 HELIX 10 AB1 ARG H 86 THR H 90 5 5 HELIX 11 AB2 VAL H 100 TYR H 102 5 3 HELIX 12 AB3 SER H 160 ALA H 162 5 3 HELIX 13 AB4 PRO H 189 THR H 195 5 7 HELIX 14 AB5 LYS H 205 ASN H 208 5 4 HELIX 15 AB6 SER L 30 LEU L 34 5 5 HELIX 16 AB7 GLU L 80 PHE L 84 5 5 HELIX 17 AB8 SER L 121 GLY L 128 1 8 HELIX 18 AB9 LYS L 183 GLU L 187 1 5 SHEET 1 AA1 5 ASN E 354 ILE E 358 0 SHEET 2 AA1 5 VAL E 395 ARG E 403 -1 O VAL E 395 N ILE E 358 SHEET 3 AA1 5 PRO E 507 PHE E 515 -1 O VAL E 512 N ASP E 398 SHEET 4 AA1 5 CYS E 432 ASN E 437 -1 N CYS E 432 O LEU E 513 SHEET 5 AA1 5 THR E 376 CYS E 379 -1 N THR E 376 O ALA E 435 SHEET 1 AA2 2 CYS E 361 VAL E 362 0 SHEET 2 AA2 2 VAL E 524 CYS E 525 1 O CYS E 525 N CYS E 361 SHEET 1 AA3 2 LEU E 452 ARG E 454 0 SHEET 2 AA3 2 LEU E 492 SER E 494 -1 O GLN E 493 N TYR E 453 SHEET 1 AA4 2 TYR E 473 GLN E 474 0 SHEET 2 AA4 2 CYS E 488 TYR E 489 -1 O TYR E 489 N TYR E 473 SHEET 1 AA5 4 GLN H 3 SER H 7 0 SHEET 2 AA5 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 AA5 4 THR H 77 MET H 82 -1 O MET H 82 N LEU H 18 SHEET 4 AA5 4 PHE H 67 ARG H 71 -1 N THR H 68 O GLN H 81 SHEET 1 AA6 6 LEU H 11 VAL H 12 0 SHEET 2 AA6 6 THR H 111 VAL H 115 1 O THR H 114 N VAL H 12 SHEET 3 AA6 6 ALA H 91 ASP H 98 -1 N TYR H 93 O THR H 111 SHEET 4 AA6 6 TYR H 33 GLN H 39 -1 N VAL H 37 O HIS H 94 SHEET 5 AA6 6 LEU H 45 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 AA6 6 THR H 57 TYR H 59 -1 O TYR H 58 N LEU H 50 SHEET 1 AA7 4 LEU H 11 VAL H 12 0 SHEET 2 AA7 4 THR H 111 VAL H 115 1 O THR H 114 N VAL H 12 SHEET 3 AA7 4 ALA H 91 ASP H 98 -1 N TYR H 93 O THR H 111 SHEET 4 AA7 4 MET H 104 TRP H 107 -1 O VAL H 106 N ARG H 97 SHEET 1 AA8 4 SER H 124 LEU H 128 0 SHEET 2 AA8 4 ALA H 140 TYR H 149 -1 O GLY H 143 N LEU H 128 SHEET 3 AA8 4 TYR H 180 VAL H 188 -1 O LEU H 182 N VAL H 146 SHEET 4 AA8 4 VAL H 167 THR H 169 -1 N HIS H 168 O VAL H 185 SHEET 1 AA9 4 SER H 124 LEU H 128 0 SHEET 2 AA9 4 ALA H 140 TYR H 149 -1 O GLY H 143 N LEU H 128 SHEET 3 AA9 4 TYR H 180 VAL H 188 -1 O LEU H 182 N VAL H 146 SHEET 4 AA9 4 VAL H 173 LEU H 174 -1 N VAL H 173 O SER H 181 SHEET 1 AB1 3 THR H 155 TRP H 158 0 SHEET 2 AB1 3 ILE H 199 HIS H 204 -1 O ASN H 201 N SER H 157 SHEET 3 AB1 3 THR H 209 LYS H 214 -1 O THR H 209 N HIS H 204 SHEET 1 AB2 4 LEU L 4 SER L 7 0 SHEET 2 AB2 4 ALA L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 AB2 4 ASP L 71 ILE L 76 -1 O PHE L 72 N CYS L 23 SHEET 4 AB2 4 PHE L 63 SER L 68 -1 N SER L 64 O THR L 75 SHEET 1 AB3 6 THR L 10 LEU L 13 0 SHEET 2 AB3 6 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AB3 6 VAL L 86 TYR L 92 -1 N TYR L 87 O THR L 102 SHEET 4 AB3 6 ALA L 35 GLN L 39 -1 N TYR L 37 O TYR L 88 SHEET 5 AB3 6 ARG L 46 TYR L 50 -1 O LEU L 48 N TRP L 36 SHEET 6 AB3 6 SER L 54 ARG L 55 -1 O SER L 54 N TYR L 50 SHEET 1 AB4 4 THR L 10 LEU L 13 0 SHEET 2 AB4 4 THR L 102 ILE L 106 1 O LYS L 103 N LEU L 11 SHEET 3 AB4 4 VAL L 86 TYR L 92 -1 N TYR L 87 O THR L 102 SHEET 4 AB4 4 PRO L 96 PHE L 98 -1 O THR L 97 N GLN L 91 SHEET 1 AB5 4 SER L 114 PHE L 118 0 SHEET 2 AB5 4 THR L 129 PHE L 139 -1 O ASN L 137 N SER L 114 SHEET 3 AB5 4 TYR L 173 SER L 182 -1 O TYR L 173 N PHE L 139 SHEET 4 AB5 4 SER L 159 VAL L 163 -1 N GLN L 160 O THR L 178 SHEET 1 AB6 4 ALA L 153 LEU L 154 0 SHEET 2 AB6 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 AB6 4 VAL L 191 THR L 197 -1 O GLU L 195 N GLN L 147 SHEET 4 AB6 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SSBOND 1 CYS E 336 CYS E 361 1555 1555 2.04 SSBOND 2 CYS E 379 CYS E 432 1555 1555 2.06 SSBOND 3 CYS E 391 CYS E 525 1555 1555 2.06 SSBOND 4 CYS E 480 CYS E 488 1555 1555 2.08 SSBOND 5 CYS H 22 CYS H 95 1555 1555 2.04 SSBOND 6 CYS H 144 CYS H 200 1555 1555 2.04 SSBOND 7 CYS L 23 CYS L 89 1555 1555 2.08 SSBOND 8 CYS L 134 CYS L 194 1555 1555 2.04 LINK ND2 ASN E 343 C1 NAG E 601 1555 1555 1.46 CISPEP 1 PHE H 150 PRO H 151 0 -14.29 CISPEP 2 GLU H 152 PRO H 153 0 1.95 CISPEP 3 SER L 7 PRO L 8 0 -10.28 CISPEP 4 TYR L 140 PRO L 141 0 4.53 CRYST1 194.880 85.390 58.510 90.00 100.29 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 0.005131 0.000000 0.000932 0.00000 SCALE2 0.000000 0.011711 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017370 0.00000