HEADER ANTIVIRAL PROTEIN 18-APR-23 8SK5 TITLE CRYSTAL STRUCTURE OF THE SARS-COV-2 NEUTRALIZING VHH 7A9 BOUND TO THE TITLE 2 SPIKE RECEPTOR BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RECEPTOR BINDING DOMAIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ANTI-SARS-COV-2 RECEPTOR BINDING DOMAIN VHH; COMPND 8 CHAIN: B; COMPND 9 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: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 11 ORGANISM_COMMON: LLAMA; SOURCE 12 ORGANISM_TAXID: 9844; SOURCE 13 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 14 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS VHH, COMPLEX, ANTIVIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.L.NOLAND,K.PANDE,L.ZHANG,H.ZHOU,J.GALLI,M.EDDINS,Y.GOMEZ-LLORENTE REVDAT 2 06-SEP-23 8SK5 1 JRNL REVDAT 1 16-AUG-23 8SK5 0 JRNL AUTH S.A.HOLLINGSWORTH,C.L.NOLAND,K.VROOM,A.SAHA,M.SAM,Q.GAO, JRNL AUTH 2 H.ZHOU,D.U.GRANDY,S.SINGH,Z.WEN,C.WARREN,X.S.MA,D.MALASHOCK, JRNL AUTH 3 J.GALLI,G.GO,M.EDDINS,T.MAYHOOD,K.SATHIYAMOORTHY,A.FRIDMAN, JRNL AUTH 4 F.RAOUFI,Y.GOMEZ-LLORENTE,A.PATRIDGE,Y.TANG,S.J.CHEN, JRNL AUTH 5 M.BAILLY,C.JI,L.J.KINGSLEY,A.C.CHENG,B.H.GEIERSTANGER, JRNL AUTH 6 D.M.GORMAN,L.ZHANG,K.PANDE JRNL TITL DISCOVERY AND MULTIMERIZATION OF CROSS-REACTIVE JRNL TITL 2 SINGLE-DOMAIN ANTIBODIES AGAINST SARS-LIKE VIRUSES TO JRNL TITL 3 ENHANCE POTENCY AND ADDRESS EMERGING SARS-COV-2 VARIANTS. JRNL REF SCI REP V. 13 13668 2023 JRNL REFN ESSN 2045-2322 JRNL PMID 37608223 JRNL DOI 10.1038/S41598-023-40919-7 REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.23 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 70.9 REMARK 3 NUMBER OF REFLECTIONS : 29572 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1470 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 36.2300 - 4.4700 1.00 3788 202 0.1518 0.1664 REMARK 3 2 4.4700 - 3.5500 1.00 3681 166 0.1479 0.1892 REMARK 3 3 3.5500 - 3.1000 1.00 3611 196 0.1806 0.2131 REMARK 3 4 3.1000 - 2.8200 1.00 3616 174 0.2205 0.2280 REMARK 3 5 2.8200 - 2.6200 1.00 3577 196 0.2283 0.2571 REMARK 3 6 2.6200 - 2.4600 1.00 3564 193 0.2498 0.2831 REMARK 3 7 2.4600 - 2.3400 0.80 2861 163 0.2780 0.2981 REMARK 3 8 2.3400 - 2.2400 0.49 1726 94 0.2664 0.2400 REMARK 3 9 2.2400 - 2.1500 0.29 1035 49 0.2702 0.3475 REMARK 3 10 2.1500 - 2.0800 0.14 504 25 0.2862 0.2527 REMARK 3 11 2.0800 - 2.0110 0.04 139 12 0.3322 0.4946 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.217 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.146 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.94 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 : 0.002 2640 REMARK 3 ANGLE : 0.565 3591 REMARK 3 CHIRALITY : 0.043 388 REMARK 3 PLANARITY : 0.004 469 REMARK 3 DIHEDRAL : 5.064 390 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 333 THROUGH 358 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7233 -35.1616 2.5904 REMARK 3 T TENSOR REMARK 3 T11: 0.3983 T22: 0.6224 REMARK 3 T33: 0.4913 T12: 0.0218 REMARK 3 T13: 0.0041 T23: 0.1113 REMARK 3 L TENSOR REMARK 3 L11: 0.3163 L22: 0.7117 REMARK 3 L33: 0.5763 L12: 0.8254 REMARK 3 L13: 0.3417 L23: 0.3309 REMARK 3 S TENSOR REMARK 3 S11: 0.1745 S12: 0.6155 S13: 0.2790 REMARK 3 S21: -0.4033 S22: -0.2091 S23: -0.5763 REMARK 3 S31: -0.0104 S32: 0.6341 S33: 0.0002 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 359 THROUGH 375 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0969 -33.9075 8.1297 REMARK 3 T TENSOR REMARK 3 T11: 0.5064 T22: 0.9109 REMARK 3 T33: 0.6536 T12: -0.0816 REMARK 3 T13: -0.0240 T23: 0.1077 REMARK 3 L TENSOR REMARK 3 L11: 0.3664 L22: 0.1543 REMARK 3 L33: 0.4423 L12: -0.6735 REMARK 3 L13: 0.2518 L23: -0.1714 REMARK 3 S TENSOR REMARK 3 S11: 0.0248 S12: 0.1219 S13: 0.1790 REMARK 3 S21: -0.4460 S22: 0.0207 S23: -0.9552 REMARK 3 S31: -0.3803 S32: 0.7586 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 376 THROUGH 409 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.5664 -32.7741 14.4427 REMARK 3 T TENSOR REMARK 3 T11: 0.3673 T22: 0.6203 REMARK 3 T33: 0.3993 T12: -0.0526 REMARK 3 T13: -0.1063 T23: 0.0525 REMARK 3 L TENSOR REMARK 3 L11: 1.7717 L22: 0.8366 REMARK 3 L33: 2.4324 L12: 1.5488 REMARK 3 L13: 0.5556 L23: -0.9454 REMARK 3 S TENSOR REMARK 3 S11: -0.0107 S12: -0.0368 S13: 0.2942 REMARK 3 S21: 0.2239 S22: -0.1398 S23: -0.4097 REMARK 3 S31: -0.2013 S32: 0.6782 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 410 THROUGH 469 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.9992 -27.7628 11.0620 REMARK 3 T TENSOR REMARK 3 T11: 0.3619 T22: 0.3599 REMARK 3 T33: 0.3856 T12: -0.0323 REMARK 3 T13: -0.0645 T23: 0.0503 REMARK 3 L TENSOR REMARK 3 L11: 3.7068 L22: 2.4759 REMARK 3 L33: 2.0905 L12: -0.2271 REMARK 3 L13: 1.4207 L23: 0.4437 REMARK 3 S TENSOR REMARK 3 S11: -0.2076 S12: 0.2124 S13: 0.5360 REMARK 3 S21: 0.0617 S22: -0.0147 S23: -0.1437 REMARK 3 S31: -0.3454 S32: 0.1315 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 470 THROUGH 494 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.6899 -23.3761 8.1626 REMARK 3 T TENSOR REMARK 3 T11: 0.4953 T22: 0.4787 REMARK 3 T33: 0.4370 T12: 0.0375 REMARK 3 T13: -0.0751 T23: -0.0426 REMARK 3 L TENSOR REMARK 3 L11: 0.9406 L22: 0.5064 REMARK 3 L33: 0.4235 L12: -0.1734 REMARK 3 L13: 0.4607 L23: -1.0894 REMARK 3 S TENSOR REMARK 3 S11: 0.0425 S12: -0.0728 S13: 0.3627 REMARK 3 S21: 0.1889 S22: -0.0657 S23: -0.0590 REMARK 3 S31: -0.4307 S32: 0.0613 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 495 THROUGH 506 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.4299 -12.9054 6.1359 REMARK 3 T TENSOR REMARK 3 T11: 0.7146 T22: 0.4875 REMARK 3 T33: 0.9109 T12: -0.1250 REMARK 3 T13: -0.1819 T23: 0.1241 REMARK 3 L TENSOR REMARK 3 L11: 0.0005 L22: 0.0545 REMARK 3 L33: -0.0848 L12: 0.0611 REMARK 3 L13: 0.0398 L23: -0.0490 REMARK 3 S TENSOR REMARK 3 S11: -0.4649 S12: 0.1437 S13: 1.2112 REMARK 3 S21: 0.3051 S22: -0.0820 S23: 0.2142 REMARK 3 S31: -0.9567 S32: -0.1912 S33: 0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 507 THROUGH 527 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.5010 -39.8868 11.4708 REMARK 3 T TENSOR REMARK 3 T11: 0.3586 T22: 0.5916 REMARK 3 T33: 0.4138 T12: 0.0116 REMARK 3 T13: -0.0581 T23: 0.0973 REMARK 3 L TENSOR REMARK 3 L11: 2.3470 L22: 0.3726 REMARK 3 L33: 2.0110 L12: 0.2873 REMARK 3 L13: -0.1560 L23: 1.0795 REMARK 3 S TENSOR REMARK 3 S11: -0.0902 S12: 0.0389 S13: -0.0105 REMARK 3 S21: 0.1008 S22: -0.0476 S23: -0.5546 REMARK 3 S31: 0.3048 S32: 0.6268 S33: 0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 17 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.4778 -58.7369 -3.8912 REMARK 3 T TENSOR REMARK 3 T11: 0.5220 T22: 0.3774 REMARK 3 T33: 0.5533 T12: 0.0194 REMARK 3 T13: 0.0538 T23: -0.1607 REMARK 3 L TENSOR REMARK 3 L11: 0.2005 L22: 1.9794 REMARK 3 L33: 1.5785 L12: -0.0514 REMARK 3 L13: -1.2158 L23: -0.4595 REMARK 3 S TENSOR REMARK 3 S11: 0.0908 S12: -0.3340 S13: -0.7419 REMARK 3 S21: 0.2751 S22: -0.0194 S23: -0.0780 REMARK 3 S31: 0.5612 S32: -0.0538 S33: 0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 18 THROUGH 39 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.8332 -54.7447 2.9668 REMARK 3 T TENSOR REMARK 3 T11: 0.4682 T22: 0.3905 REMARK 3 T33: 0.4802 T12: 0.0054 REMARK 3 T13: -0.0149 T23: 0.0063 REMARK 3 L TENSOR REMARK 3 L11: 0.8382 L22: 0.9647 REMARK 3 L33: 0.4504 L12: -0.0910 REMARK 3 L13: -0.1993 L23: 1.1662 REMARK 3 S TENSOR REMARK 3 S11: 0.1429 S12: -0.0295 S13: -0.5620 REMARK 3 S21: 0.3194 S22: -0.0580 S23: -0.0673 REMARK 3 S31: 0.6948 S32: 0.3062 S33: 0.0000 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 40 THROUGH 51 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.3428 -46.9119 -7.4661 REMARK 3 T TENSOR REMARK 3 T11: 0.3845 T22: 0.5540 REMARK 3 T33: 0.4155 T12: -0.0036 REMARK 3 T13: 0.0323 T23: -0.0240 REMARK 3 L TENSOR REMARK 3 L11: 0.7386 L22: 0.9396 REMARK 3 L33: 0.1349 L12: 0.1860 REMARK 3 L13: 0.0643 L23: 0.2565 REMARK 3 S TENSOR REMARK 3 S11: -0.1478 S12: 0.5028 S13: 0.0255 REMARK 3 S21: -0.5218 S22: 0.1112 S23: -0.1026 REMARK 3 S31: 0.1764 S32: 0.6343 S33: 0.0000 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 52 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.7580 -46.6260 16.8716 REMARK 3 T TENSOR REMARK 3 T11: 0.6254 T22: 0.5664 REMARK 3 T33: 0.3367 T12: -0.0417 REMARK 3 T13: 0.0276 T23: 0.0159 REMARK 3 L TENSOR REMARK 3 L11: 0.0956 L22: 0.0949 REMARK 3 L33: -0.0421 L12: 0.0201 REMARK 3 L13: -0.1238 L23: 0.0665 REMARK 3 S TENSOR REMARK 3 S11: 0.2578 S12: -1.2985 S13: 0.0017 REMARK 3 S21: 0.9808 S22: -0.1843 S23: 0.0534 REMARK 3 S31: 0.2732 S32: -0.0608 S33: 0.0000 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 63 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.2226 -46.3536 2.3050 REMARK 3 T TENSOR REMARK 3 T11: 0.3681 T22: 0.3843 REMARK 3 T33: 0.3344 T12: -0.0224 REMARK 3 T13: 0.0331 T23: -0.0390 REMARK 3 L TENSOR REMARK 3 L11: 1.2807 L22: 0.6404 REMARK 3 L33: 1.0010 L12: 0.6509 REMARK 3 L13: 0.2789 L23: 1.8423 REMARK 3 S TENSOR REMARK 3 S11: 0.1128 S12: -0.0848 S13: -0.0656 REMARK 3 S21: 0.2716 S22: -0.1263 S23: 0.1570 REMARK 3 S31: -0.1289 S32: 0.0196 S33: 0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 79 THROUGH 88 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.1358 -56.6715 6.5600 REMARK 3 T TENSOR REMARK 3 T11: 0.6498 T22: 0.5599 REMARK 3 T33: 0.5310 T12: 0.0270 REMARK 3 T13: 0.0017 T23: 0.0406 REMARK 3 L TENSOR REMARK 3 L11: 0.4663 L22: 0.4937 REMARK 3 L33: 0.3162 L12: -0.0195 REMARK 3 L13: -0.4200 L23: 0.3685 REMARK 3 S TENSOR REMARK 3 S11: 0.1590 S12: -0.3519 S13: -0.4188 REMARK 3 S21: 0.5801 S22: -0.1819 S23: -0.3635 REMARK 3 S31: 0.8405 S32: 0.3767 S33: -0.0113 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 89 THROUGH 114 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.4992 -47.7184 -0.9341 REMARK 3 T TENSOR REMARK 3 T11: 0.3635 T22: 0.3726 REMARK 3 T33: 0.3544 T12: 0.0189 REMARK 3 T13: 0.0282 T23: -0.0206 REMARK 3 L TENSOR REMARK 3 L11: 0.5413 L22: 0.4628 REMARK 3 L33: 1.3043 L12: 0.1681 REMARK 3 L13: 0.0600 L23: 0.4801 REMARK 3 S TENSOR REMARK 3 S11: -0.0533 S12: 0.2311 S13: -0.1477 REMARK 3 S21: 0.1028 S22: -0.1483 S23: 0.0444 REMARK 3 S31: 0.1802 S32: 0.1003 S33: 0.0000 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 115 THROUGH 135 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.3952 -53.0315 -6.0072 REMARK 3 T TENSOR REMARK 3 T11: 0.3634 T22: 0.4525 REMARK 3 T33: 0.3798 T12: 0.0877 REMARK 3 T13: 0.0122 T23: -0.1085 REMARK 3 L TENSOR REMARK 3 L11: 0.6565 L22: 1.7995 REMARK 3 L33: 1.1287 L12: 0.1442 REMARK 3 L13: -1.1680 L23: 0.3174 REMARK 3 S TENSOR REMARK 3 S11: 0.0114 S12: 0.2884 S13: -0.3988 REMARK 3 S21: -0.0397 S22: 0.0358 S23: -0.0458 REMARK 3 S31: 0.3019 S32: 0.3824 S33: 0.0000 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 8SK5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-APR-23. REMARK 100 THE DEPOSITION ID IS D_1000273921. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29582 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.011 REMARK 200 RESOLUTION RANGE LOW (A) : 81.322 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 70.9 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.22 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.99900 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM MALONATE PH 6.0, 18% PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, 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 80.92400 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 40.46200 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 40.46200 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 80.92400 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 46.95150 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 -81.32238 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 40.46200 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 A 319 REMARK 465 VAL A 320 REMARK 465 GLN A 321 REMARK 465 PRO A 322 REMARK 465 THR A 323 REMARK 465 GLU A 324 REMARK 465 SER A 325 REMARK 465 ILE A 326 REMARK 465 VAL A 327 REMARK 465 ARG A 328 REMARK 465 PHE A 329 REMARK 465 PRO A 330 REMARK 465 ASN A 331 REMARK 465 ILE A 332 REMARK 465 LYS A 528 REMARK 465 LYS A 529 REMARK 465 SER A 530 REMARK 465 THR A 531 REMARK 465 ASN A 532 REMARK 465 LEU A 533 REMARK 465 VAL A 534 REMARK 465 LYS A 535 REMARK 465 ASN A 536 REMARK 465 LYS A 537 REMARK 465 CYS A 538 REMARK 465 VAL A 539 REMARK 465 ASN A 540 REMARK 465 PHE A 541 REMARK 465 SER A 542 REMARK 465 GLY A 543 REMARK 465 HIS A 544 REMARK 465 HIS A 545 REMARK 465 HIS A 546 REMARK 465 HIS A 547 REMARK 465 HIS A 548 REMARK 465 HIS A 549 REMARK 465 ALA B 136 REMARK 465 ALA B 137 REMARK 465 ASP B 138 REMARK 465 TYR B 139 REMARK 465 LYS B 140 REMARK 465 ASP B 141 REMARK 465 HIS B 142 REMARK 465 ASP B 143 REMARK 465 GLY B 144 REMARK 465 ASP B 145 REMARK 465 TYR B 146 REMARK 465 LYS B 147 REMARK 465 ASP B 148 REMARK 465 HIS B 149 REMARK 465 ASP B 150 REMARK 465 ILE B 151 REMARK 465 ASP B 152 REMARK 465 TYR B 153 REMARK 465 LYS B 154 REMARK 465 ASP B 155 REMARK 465 ASP B 156 REMARK 465 ASP B 157 REMARK 465 ASP B 158 REMARK 465 LYS B 159 REMARK 465 GLY B 160 REMARK 465 ALA B 161 REMARK 465 ALA B 162 REMARK 465 HIS B 163 REMARK 465 HIS B 164 REMARK 465 HIS B 165 REMARK 465 HIS B 166 REMARK 465 HIS B 167 REMARK 465 HIS B 168 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 THR A 333 OG1 CG2 REMARK 470 ARG A 346 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 369 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 444 CG CD CE NZ REMARK 470 VAL A 445 CG1 CG2 REMARK 470 ARG B 54 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 79 CG OD1 ND2 REMARK 470 ALA B 135 CB 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 A 352 52.12 -114.06 REMARK 500 PHE A 377 69.69 -154.65 REMARK 500 PHE A 400 -177.02 -170.35 REMARK 500 ASN A 422 -55.44 -124.14 REMARK 500 ASP A 428 36.38 -87.40 REMARK 500 THR A 470 42.78 -141.05 REMARK 500 REMARK 500 REMARK: NULL DBREF 8SK5 A 319 541 UNP P0DTC2 SPIKE_SARS2 319 541 DBREF 8SK5 B 1 168 PDB 8SK5 8SK5 1 168 SEQADV 8SK5 SER A 542 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 GLY A 543 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 544 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 545 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 546 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 547 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 548 UNP P0DTC2 EXPRESSION TAG SEQADV 8SK5 HIS A 549 UNP P0DTC2 EXPRESSION TAG SEQRES 1 A 231 ARG VAL GLN PRO THR GLU SER ILE VAL ARG PHE PRO ASN SEQRES 2 A 231 ILE THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA SEQRES 3 A 231 THR ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG SEQRES 4 A 231 ILE SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SEQRES 5 A 231 SER ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER SEQRES 6 A 231 PRO THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR SEQRES 7 A 231 ALA ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN SEQRES 8 A 231 ILE ALA PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN SEQRES 9 A 231 TYR LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA SEQRES 10 A 231 TRP ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN SEQRES 11 A 231 TYR ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU SEQRES 12 A 231 LYS PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN SEQRES 13 A 231 ALA GLY SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN SEQRES 14 A 231 CYS TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR SEQRES 15 A 231 ASN GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SEQRES 16 A 231 SER PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY SEQRES 17 A 231 PRO LYS LYS SER THR ASN LEU VAL LYS ASN LYS CYS VAL SEQRES 18 A 231 ASN PHE SER GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 165 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 165 ALA GLY GLY SER LEU ARG LEU SER CYS SER ALA SER GLY SEQRES 3 B 165 GLY THR ALA SER ARG SER ALA MET GLY TRP PHE ARG GLN SEQRES 4 B 165 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA GLY ILE SER SEQRES 5 B 165 ARG ARG ASN SER GLY SER THR TYR VAL ALA ASP SER TYR SEQRES 6 B 165 GLU ASP SER VAL LYS GLY ARG PHE THR ILE SER ARG ASP SEQRES 7 B 165 ASN ALA LYS ASN THR ILE TYR LEU GLN MET ASN SER LEU SEQRES 8 B 165 LYS PRO GLU ASP THR ALA VAL TYR TYR CYS ALA ALA GLU SEQRES 9 B 165 PRO THR LEU GLY TRP TYR VAL PRO ARG ARG SER VAL GLU SEQRES 10 B 165 TYR GLU TYR TRP GLY GLN GLY THR GLN VAL THR VAL SER SEQRES 11 B 165 SER ALA ALA ALA ASP TYR LYS ASP HIS ASP GLY ASP TYR SEQRES 12 B 165 LYS ASP HIS ASP ILE ASP TYR LYS ASP ASP ASP ASP LYS SEQRES 13 B 165 GLY ALA ALA HIS HIS HIS HIS HIS HIS HET NAG C 1 14 HET NAG C 2 14 HET FUC C 3 10 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE 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 FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 3 FUC C6 H12 O5 FORMUL 4 HOH *157(H2 O) HELIX 1 AA1 PRO A 337 ASN A 343 1 7 HELIX 2 AA2 SER A 349 TRP A 353 5 5 HELIX 3 AA3 TYR A 365 SER A 371 1 7 HELIX 4 AA4 SER A 383 ASP A 389 5 7 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 GLY B 26 SER B 30 5 5 HELIX 10 AB1 ASP B 67 LYS B 70 5 4 HELIX 11 AB2 LYS B 92 THR B 96 5 5 HELIX 12 AB3 ARG B 114 TYR B 118 5 5 SHEET 1 AA1 5 ASN A 354 ILE A 358 0 SHEET 2 AA1 5 ASN A 394 ARG A 403 -1 O VAL A 395 N ILE A 358 SHEET 3 AA1 5 PRO A 507 GLU A 516 -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 TYR A 380 O GLY A 431 SHEET 1 AA2 3 CYS A 361 VAL A 362 0 SHEET 2 AA2 3 VAL A 524 CYS A 525 1 O CYS A 525 N CYS A 361 SHEET 3 AA2 3 CYS A 391 PHE A 392 -1 N PHE A 392 O VAL A 524 SHEET 1 AA3 2 LEU A 452 ARG A 454 0 SHEET 2 AA3 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AA4 2 TYR A 473 GLN A 474 0 SHEET 2 AA4 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SHEET 1 AA5 4 GLN B 3 SER B 7 0 SHEET 2 AA5 4 LEU B 18 SER B 25 -1 O SER B 21 N SER B 7 SHEET 3 AA5 4 THR B 83 MET B 88 -1 O MET B 88 N LEU B 18 SHEET 4 AA5 4 PHE B 73 ARG B 77 -1 N THR B 74 O GLN B 87 SHEET 1 AA6 6 GLY B 10 GLN B 13 0 SHEET 2 AA6 6 THR B 125 SER B 130 1 O THR B 128 N GLY B 10 SHEET 3 AA6 6 ALA B 97 PRO B 105 -1 N TYR B 99 O THR B 125 SHEET 4 AA6 6 SER B 32 GLN B 39 -1 N ALA B 33 O GLU B 104 SHEET 5 AA6 6 GLU B 46 ILE B 51 -1 O ALA B 49 N TRP B 36 SHEET 6 AA6 6 ASP B 63 TYR B 65 -1 O SER B 64 N GLY B 50 SHEET 1 AA7 4 GLY B 10 GLN B 13 0 SHEET 2 AA7 4 THR B 125 SER B 130 1 O THR B 128 N GLY B 10 SHEET 3 AA7 4 ALA B 97 PRO B 105 -1 N TYR B 99 O THR B 125 SHEET 4 AA7 4 TYR B 120 TRP B 121 -1 O TYR B 120 N ALA B 103 SSBOND 1 CYS A 336 CYS A 361 1555 1555 2.03 SSBOND 2 CYS A 379 CYS A 432 1555 1555 2.03 SSBOND 3 CYS A 391 CYS A 525 1555 1555 2.03 SSBOND 4 CYS A 480 CYS A 488 1555 1555 2.03 SSBOND 5 CYS B 22 CYS B 101 1555 1555 2.03 LINK ND2 ASN A 343 C1 NAG C 1 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O6 NAG C 1 C1 FUC C 3 1555 1555 1.44 CRYST1 93.903 93.903 121.386 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 0.010649 0.006148 0.000000 0.00000 SCALE2 0.000000 0.012297 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008238 0.00000