HEADER VIRAL PROTEIN 20-MAY-21 7OLZ TITLE CRYSTAL STRUCTURE OF THE SARS-COV-2 RBD WITH NEUTRALIZING-VHHS RE5D06 TITLE 2 AND RE9F06 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NANOBODY RE5D06; COMPND 3 CHAIN: C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: NANOBODY RE9F06; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: SPIKE PROTEIN S1; COMPND 11 CHAIN: A; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 3 ORGANISM_TAXID: 30538; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 8 ORGANISM_TAXID: 30538; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 13 2; SOURCE 14 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 15 ORGANISM_TAXID: 2697049; SOURCE 16 GENE: S, 2; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COVID19, NEUTRALIZING VHH, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.AKSU,T.GUTTLER,D.GORLICH REVDAT 3 31-JAN-24 7OLZ 1 REMARK REVDAT 2 13-OCT-21 7OLZ 1 JRNL REVDAT 1 11-AUG-21 7OLZ 0 JRNL AUTH T.GUTTLER,M.AKSU,A.DICKMANNS,K.M.STEGMANN,K.GREGOR,R.REES, JRNL AUTH 2 W.TAXER,O.RYMARENKO,J.SCHUNEMANN,C.DIENEMANN,P.GUNKEL, JRNL AUTH 3 B.MUSSIL,J.KRULL,U.TEICHMANN,U.GROSS,V.C.CORDES, JRNL AUTH 4 M.DOBBELSTEIN,D.GORLICH JRNL TITL NEUTRALIZATION OF SARS-COV-2 BY HIGHLY POTENT, JRNL TITL 2 HYPERTHERMOSTABLE, AND MUTATION-TOLERANT NANOBODIES. JRNL REF EMBO J. V. 40 07985 2021 JRNL REFN ESSN 1460-2075 JRNL PMID 34302370 JRNL DOI 10.15252/EMBJ.2021107985 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.1 REMARK 3 NUMBER OF REFLECTIONS : 39592 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 2048 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 53.0100 - 4.3200 0.99 3133 182 0.1836 0.1979 REMARK 3 2 4.3100 - 3.4300 0.99 2961 175 0.1551 0.1824 REMARK 3 3 3.4300 - 2.9900 0.99 2961 168 0.1745 0.2108 REMARK 3 4 2.9900 - 2.7200 0.99 2903 176 0.1820 0.2128 REMARK 3 5 2.7200 - 2.5200 0.98 2898 158 0.1810 0.2191 REMARK 3 6 2.5200 - 2.3800 0.99 2889 153 0.1784 0.2175 REMARK 3 7 2.3700 - 2.2600 0.98 2867 155 0.1712 0.2147 REMARK 3 8 2.2600 - 2.1600 0.93 2740 149 0.1766 0.2131 REMARK 3 9 2.1600 - 2.0700 0.88 2546 133 0.1749 0.2242 REMARK 3 10 2.0700 - 2.0000 0.83 2410 134 0.1754 0.2198 REMARK 3 11 2.0000 - 1.9400 0.77 2291 88 0.1734 0.2000 REMARK 3 12 1.9400 - 1.8900 0.71 2037 116 0.1827 0.2617 REMARK 3 13 1.8900 - 1.8400 0.63 1835 92 0.1931 0.2258 REMARK 3 14 1.8400 - 1.7900 0.55 1608 88 0.1950 0.2597 REMARK 3 15 1.7900 - 1.7500 0.50 1465 81 0.2065 0.2366 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) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.750 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.47 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 : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'C' AND RESID 1 THROUGH 129) REMARK 3 ORIGIN FOR THE GROUP (A): -6.9977 2.6088 -7.5895 REMARK 3 T TENSOR REMARK 3 T11: 0.1636 T22: 0.1254 REMARK 3 T33: 0.1331 T12: -0.0533 REMARK 3 T13: 0.0497 T23: -0.0216 REMARK 3 L TENSOR REMARK 3 L11: 0.9319 L22: 2.9889 REMARK 3 L33: 1.2315 L12: -0.2949 REMARK 3 L13: -0.2609 L23: -0.7567 REMARK 3 S TENSOR REMARK 3 S11: 0.1277 S12: 0.0175 S13: 0.1963 REMARK 3 S21: 0.0799 S22: -0.0243 S23: 0.1424 REMARK 3 S31: -0.3156 S32: 0.1987 S33: -0.0366 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 1 THROUGH 122) REMARK 3 ORIGIN FOR THE GROUP (A): -5.5955 -27.3925 -40.1293 REMARK 3 T TENSOR REMARK 3 T11: 0.1434 T22: 0.1074 REMARK 3 T33: 0.1480 T12: -0.0212 REMARK 3 T13: -0.0260 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 2.0764 L22: 2.3086 REMARK 3 L33: 2.2513 L12: -0.2339 REMARK 3 L13: 0.7332 L23: 0.0376 REMARK 3 S TENSOR REMARK 3 S11: -0.0564 S12: 0.0327 S13: -0.0994 REMARK 3 S21: -0.1370 S22: 0.0956 S23: 0.4654 REMARK 3 S31: 0.0566 S32: -0.1222 S33: -0.0189 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 335 THROUGH 515) REMARK 3 ORIGIN FOR THE GROUP (A): 10.7374 -22.1300 -15.5338 REMARK 3 T TENSOR REMARK 3 T11: 0.0509 T22: 0.0937 REMARK 3 T33: 0.0646 T12: 0.0002 REMARK 3 T13: 0.0083 T23: -0.0123 REMARK 3 L TENSOR REMARK 3 L11: 1.7483 L22: 1.3470 REMARK 3 L33: 2.0036 L12: 0.1917 REMARK 3 L13: 0.3899 L23: 0.6144 REMARK 3 S TENSOR REMARK 3 S11: -0.0130 S12: 0.1131 S13: -0.0480 REMARK 3 S21: -0.0329 S22: 0.0476 S23: -0.1108 REMARK 3 S31: 0.1110 S32: 0.2028 S33: 0.0042 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 7OLZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1292114030. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45701 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 53.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.1 REMARK 200 DATA REDUNDANCY : 13.30 REMARK 200 R MERGE (I) : 0.09045 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 51.4 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : 1.53000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.990 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: 6YZ5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MOPS PH 7.5, 2.07 M AMMONIUM REMARK 280 SULFATE, 0.1 M NDSB-256, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 27.47750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.01450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.50850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.01450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.47750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.50850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, B, 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 C -1 REMARK 465 SER C 0 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 SER B 123 REMARK 465 THR B 124 REMARK 465 SER B 125 REMARK 465 THR A 333 REMARK 465 ASN A 334 REMARK 465 PRO A 384 REMARK 465 THR A 385 REMARK 465 LYS A 386 REMARK 465 LEU A 387 REMARK 465 ASN A 388 REMARK 465 ASP A 389 REMARK 465 LEU A 390 REMARK 465 CYS A 391 REMARK 465 PHE A 392 REMARK 465 THR A 393 REMARK 465 GLU A 516 REMARK 465 LEU A 517 REMARK 465 LEU A 518 REMARK 465 HIS A 519 REMARK 465 ALA A 520 REMARK 465 PRO A 521 REMARK 465 ALA A 522 REMARK 465 THR A 523 REMARK 465 VAL A 524 REMARK 465 CYS A 525 REMARK 465 GLY A 526 REMARK 465 PRO A 527 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 C 1 CG CD OE1 NE2 REMARK 470 GLN C 3 CG CD OE1 NE2 REMARK 470 GLN B 1 CG CD OE1 NE2 REMARK 470 ARG B 27 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 42 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 43 CG CD CE NZ REMARK 470 GLU B 44 CG CD OE1 OE2 REMARK 470 LYS B 86 CD CE NZ REMARK 470 GLN B 115 CD OE1 NE2 REMARK 470 LEU A 335 CG CD1 CD2 REMARK 470 GLU A 340 CG CD OE1 OE2 REMARK 470 VAL A 362 CG1 CG2 REMARK 470 TYR A 365 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN A 394 CG OD1 ND2 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 O HOH B 202 O HOH A 727 3544 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS C 96 CA - CB - SG ANGL. DEV. = 7.5 DEGREES 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 C 92 170.39 179.81 REMARK 500 THR C 128 -106.09 -128.23 REMARK 500 ARG B 42 -12.49 67.26 REMARK 500 ASN A 422 -57.63 -124.81 REMARK 500 REMARK 500 REMARK: NULL DBREF 7OLZ C -1 129 PDB 7OLZ 7OLZ -1 129 DBREF 7OLZ B -1 125 PDB 7OLZ 7OLZ -1 125 DBREF 7OLZ A 333 527 UNP P0DTC2 SPIKE_SARS2 333 527 SEQRES 1 C 131 GLY SER GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU SEQRES 2 C 131 VAL GLN PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 C 131 SER GLY ILE THR LEU ASP TYR TYR ALA ILE GLY TRP PHE SEQRES 4 C 131 ARG GLN ALA PRO GLY LYS GLU ARG GLU GLY VAL SER ARG SEQRES 5 C 131 ILE ARG SER SER ASP GLY SER THR ASN TYR ALA ASP SER SEQRES 6 C 131 VAL LYS GLY ARG PHE THR MET SER ARG ASP ASN ALA LYS SEQRES 7 C 131 ASN THR VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU SEQRES 8 C 131 ASP THR ALA VAL TYR TYR CYS ALA TYR GLY PRO LEU THR SEQRES 9 C 131 LYS TYR GLY SER SER TRP TYR TRP PRO TYR GLU TYR ASP SEQRES 10 C 131 TYR TRP GLY GLN GLY THR GLN VAL THR VAL SER SER THR SEQRES 11 C 131 SER SEQRES 1 B 127 GLY SER GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU SEQRES 2 B 127 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 B 127 SER GLY ARG THR PHE SER ASN ASP ALA LEU GLY TRP PHE SEQRES 4 B 127 ARG GLN ALA PRO ARG LYS GLU ARG GLU PHE VAL ALA ALA SEQRES 5 B 127 ILE ASN TRP ASN SER GLY THR TYR TYR ALA ASP SER VAL SEQRES 6 B 127 LYS GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN SEQRES 7 B 127 THR VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP SEQRES 8 B 127 THR ALA VAL TYR SER CYS ALA ALA ALA SER ASP TYR GLY SEQRES 9 B 127 LEU PRO ARG GLU ASP PHE LEU TYR ASP TYR TRP GLY GLN SEQRES 10 B 127 GLY THR GLN VAL THR VAL SER SER THR SER SEQRES 1 A 195 THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA THR SEQRES 2 A 195 ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE SEQRES 3 A 195 SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SER SEQRES 4 A 195 ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER PRO SEQRES 5 A 195 THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA SEQRES 6 A 195 ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN ILE SEQRES 7 A 195 ALA PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN TYR SEQRES 8 A 195 LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP SEQRES 9 A 195 ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN TYR SEQRES 10 A 195 ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU LYS SEQRES 11 A 195 PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA SEQRES 12 A 195 GLY SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN CYS SEQRES 13 A 195 TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR ASN SEQRES 14 A 195 GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SER SEQRES 15 A 195 PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY PRO HET DMX C 201 34 HET SO4 A 601 5 HETNAM DMX 3-[BENZYL(DIMETHYL)AMMONIO]PROPANE-1-SULFONATE HETNAM SO4 SULFATE ION FORMUL 4 DMX C12 H19 N O3 S FORMUL 5 SO4 O4 S 2- FORMUL 6 HOH *275(H2 O) HELIX 1 AA1 ASP C 62 LYS C 65 5 4 HELIX 2 AA2 LYS C 87 THR C 91 5 5 HELIX 3 AA3 THR B 28 ASP B 32 5 5 HELIX 4 AA4 ASN B 73 LYS B 75 5 3 HELIX 5 AA5 LYS B 86 THR B 90 5 5 HELIX 6 AA6 GLU B 106 TYR B 110 5 5 HELIX 7 AA7 PRO A 337 ASN A 343 1 7 HELIX 8 AA8 SER A 349 TRP A 353 5 5 HELIX 9 AA9 TYR A 365 ASN A 370 1 6 HELIX 10 AB1 SER A 371 PHE A 374 5 4 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 GLN C 3 SER C 7 0 SHEET 2 AA1 4 LEU C 18 SER C 25 -1 O ALA C 23 N VAL C 5 SHEET 3 AA1 4 THR C 78 MET C 83 -1 O MET C 83 N LEU C 18 SHEET 4 AA1 4 PHE C 68 ARG C 72 -1 N THR C 69 O GLN C 82 SHEET 1 AA2 6 GLY C 10 VAL C 12 0 SHEET 2 AA2 6 THR C 121 VAL C 125 1 O THR C 124 N GLY C 10 SHEET 3 AA2 6 ALA C 92 PRO C 100 -1 N TYR C 94 O THR C 121 SHEET 4 AA2 6 TYR C 32 GLN C 39 -1 N PHE C 37 O TYR C 95 SHEET 5 AA2 6 GLU C 46 ARG C 52 -1 O VAL C 48 N TRP C 36 SHEET 6 AA2 6 THR C 58 TYR C 60 -1 O ASN C 59 N ARG C 50 SHEET 1 AA3 4 GLY C 10 VAL C 12 0 SHEET 2 AA3 4 THR C 121 VAL C 125 1 O THR C 124 N GLY C 10 SHEET 3 AA3 4 ALA C 92 PRO C 100 -1 N TYR C 94 O THR C 121 SHEET 4 AA3 4 TYR C 116 TRP C 117 -1 O TYR C 116 N TYR C 98 SHEET 1 AA4 2 THR C 102 TYR C 104 0 SHEET 2 AA4 2 SER C 107 TYR C 109 -1 O SER C 107 N TYR C 104 SHEET 1 AA5 4 LEU B 4 SER B 7 0 SHEET 2 AA5 4 LEU B 18 ALA B 24 -1 O SER B 21 N SER B 7 SHEET 3 AA5 4 THR B 77 MET B 82 -1 O LEU B 80 N LEU B 20 SHEET 4 AA5 4 PHE B 67 ASP B 72 -1 N ASP B 72 O THR B 77 SHEET 1 AA6 6 GLY B 10 GLN B 13 0 SHEET 2 AA6 6 THR B 117 SER B 122 1 O THR B 120 N VAL B 12 SHEET 3 AA6 6 ALA B 91 ALA B 98 -1 N TYR B 93 O THR B 117 SHEET 4 AA6 6 ALA B 33 GLN B 39 -1 N GLY B 35 O ALA B 96 SHEET 5 AA6 6 GLU B 46 ILE B 51 -1 O ALA B 49 N TRP B 36 SHEET 6 AA6 6 THR B 57 TYR B 59 -1 O TYR B 58 N ALA B 50 SHEET 1 AA7 4 GLY B 10 GLN B 13 0 SHEET 2 AA7 4 THR B 117 SER B 122 1 O THR B 120 N VAL B 12 SHEET 3 AA7 4 ALA B 91 ALA B 98 -1 N TYR B 93 O THR B 117 SHEET 4 AA7 4 TYR B 112 TRP B 113 -1 O TYR B 112 N ALA B 97 SHEET 1 AA8 5 ASN A 354 ILE A 358 0 SHEET 2 AA8 5 VAL A 395 ARG A 403 -1 O ALA A 397 N LYS A 356 SHEET 3 AA8 5 PRO A 507 SER A 514 -1 O TYR A 508 N ILE A 402 SHEET 4 AA8 5 GLY A 431 ASN A 437 -1 N ILE A 434 O VAL A 511 SHEET 5 AA8 5 THR A 376 TYR A 380 -1 N LYS A 378 O VAL A 433 SHEET 1 AA9 2 LEU A 452 ARG A 454 0 SHEET 2 AA9 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AB1 2 TYR A 473 GLN A 474 0 SHEET 2 AB1 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SSBOND 1 CYS C 22 CYS C 96 1555 1555 2.03 SSBOND 2 CYS B 22 CYS B 95 1555 1555 2.07 SSBOND 3 CYS A 336 CYS A 361 1555 1555 2.04 SSBOND 4 CYS A 379 CYS A 432 1555 1555 2.07 SSBOND 5 CYS A 480 CYS A 488 1555 1555 2.06 CRYST1 54.955 57.017 144.029 90.00 90.00 90.00 P 21 21 21 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 0.018197 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017539 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006943 0.00000