HEADER ANTIVIRAL PROTEIN, IMMUNE SYSTEM 22-MAR-21 7M53 TITLE B6 FAB FRAGMENT BOUND TO THE SARS-COV/SARS-COV-2 SPIKE STEM HELIX TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE GLYCOPROTEIN STEM HELIX PEPTIDE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1146-1161 OF THE SPIKE GLYCOPROTEIN; COMPND 5 SYNONYM: S GLYCOPROTEIN,E2,PEPLOMER PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: B6 ANTIGEN-BINDING (FAB) FRAGMENT HEAVY CHAIN; COMPND 9 CHAIN: H; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: B6 ANTIGEN-BINDING (FAB) FRAGMENT LIGHT CHAIN; COMPND 13 CHAIN: L; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 4 2; SOURCE 5 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 6 ORGANISM_TAXID: 2697049; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_TAXID: 10090; SOURCE 10 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 12 MOL_ID: 3; SOURCE 13 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS BROADLY NEUTRALIZING ANTIBODY, STRUCTURAL GENOMICS, SSGCID, CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES, CSGID, ANTIVIRAL KEYWDS 3 PROTEIN, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, KEYWDS 4 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.M.SAUER,Y.J.PARK,D.VEESLER,SEATTLE STRUCTURAL GENOMICS CENTER FOR AUTHOR 2 INFECTIOUS DISEASE (SSGCID) REVDAT 5 18-OCT-23 7M53 1 REMARK REVDAT 4 30-JUN-21 7M53 1 TITLE REVDAT 3 23-JUN-21 7M53 1 AUTHOR JRNL REVDAT 2 02-JUN-21 7M53 1 TITLE REVDAT 1 26-MAY-21 7M53 0 JRNL AUTH M.M.SAUER,M.A.TORTORICI,Y.J.PARK,A.C.WALLS,L.HOMAD, JRNL AUTH 2 O.J.ACTON,J.E.BOWEN,C.WANG,X.XIONG,W.DE VAN DER SCHUEREN, JRNL AUTH 3 J.QUISPE,B.G.HOFFSTROM,B.J.BOSCH,A.T.MCGUIRE,D.VEESLER JRNL TITL STRUCTURAL BASIS FOR BROAD CORONAVIRUS NEUTRALIZATION. JRNL REF NAT.STRUCT.MOL.BIOL. V. 28 478 2021 JRNL REFN ESSN 1545-9985 JRNL PMID 33981021 JRNL DOI 10.1038/S41594-021-00596-4 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 85652 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 4260 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 46.5000 - 4.3500 0.99 2833 146 0.1415 0.1461 REMARK 3 2 4.3500 - 3.4500 0.98 2750 129 0.1242 0.1509 REMARK 3 3 3.4500 - 3.0200 0.98 2751 136 0.1410 0.1465 REMARK 3 4 3.0200 - 2.7400 0.99 2731 142 0.1481 0.1757 REMARK 3 5 2.7400 - 2.5400 0.99 2720 157 0.1499 0.1872 REMARK 3 6 2.5400 - 2.3900 0.99 2761 135 0.1419 0.1580 REMARK 3 7 2.3900 - 2.2700 0.99 2727 142 0.1374 0.1840 REMARK 3 8 2.2700 - 2.1800 0.99 2751 143 0.1329 0.1667 REMARK 3 9 2.1700 - 2.0900 0.99 2734 139 0.1233 0.1550 REMARK 3 10 2.0900 - 2.0200 0.99 2730 141 0.1385 0.1623 REMARK 3 11 2.0200 - 1.9600 0.99 2716 152 0.1293 0.1897 REMARK 3 12 1.9600 - 1.9000 1.00 2728 148 0.1212 0.1710 REMARK 3 13 1.9000 - 1.8500 1.00 2721 143 0.1247 0.1778 REMARK 3 14 1.8500 - 1.8000 1.00 2758 160 0.1335 0.1679 REMARK 3 15 1.8000 - 1.7600 1.00 2730 160 0.1419 0.1992 REMARK 3 16 1.7600 - 1.7300 1.00 2674 137 0.1562 0.1906 REMARK 3 17 1.7300 - 1.6900 1.00 2753 164 0.1728 0.2236 REMARK 3 18 1.6900 - 1.6600 1.00 2757 118 0.1935 0.2345 REMARK 3 19 1.6600 - 1.6300 1.00 2719 145 0.1773 0.2561 REMARK 3 20 1.6300 - 1.6000 1.00 2776 136 0.1662 0.1796 REMARK 3 21 1.6000 - 1.5800 0.99 2706 161 0.1637 0.1853 REMARK 3 22 1.5800 - 1.5500 1.00 2697 160 0.1594 0.1925 REMARK 3 23 1.5500 - 1.5300 0.99 2719 133 0.1738 0.2318 REMARK 3 24 1.5300 - 1.5100 0.99 2670 146 0.1817 0.2200 REMARK 3 25 1.5100 - 1.4900 0.97 2708 142 0.1888 0.2563 REMARK 3 26 1.4900 - 1.4700 0.97 2629 126 0.1986 0.2517 REMARK 3 27 1.4700 - 1.4500 0.96 2617 132 0.2082 0.2286 REMARK 3 28 1.4500 - 1.4300 0.96 2623 137 0.2172 0.2541 REMARK 3 29 1.4300 - 1.4200 0.95 2609 124 0.2418 0.3061 REMARK 3 30 1.4200 - 1.4000 0.95 2594 126 0.2786 0.3271 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.05 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 : 0.014 3759 REMARK 3 ANGLE : 1.361 5185 REMARK 3 CHIRALITY : 0.116 598 REMARK 3 PLANARITY : 0.010 668 REMARK 3 DIHEDRAL : 13.534 1404 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 7M53 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1000253352. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-20 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.977410 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 107997 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.270 REMARK 200 RESOLUTION RANGE LOW (A) : 46.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.03300 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) : 1.27 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 56.4 REMARK 200 DATA REDUNDANCY IN SHELL : 1.50 REMARK 200 R MERGE FOR SHELL (I) : 1.42700 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: 6NB8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M POTASSIUM CHLORIDE AND 20% (W/V) REMARK 280 PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 46.59150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.18000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.59150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.18000 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: 5630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH H 428 LIES ON A SPECIAL POSITION. REMARK 375 HOH H 564 LIES ON A SPECIAL POSITION. 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 ASP A 1146 REMARK 465 LYS A 1157 REMARK 465 ASN A 1158 REMARK 465 HIS A 1159 REMARK 465 THR A 1160 REMARK 465 SER A 1161 REMARK 465 CYS L 221 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 LYS A1149 CG CD CE NZ REMARK 470 LYS A1154 CG CD CE NZ REMARK 470 GLN H 7 CG CD OE1 NE2 REMARK 470 TYR H 56 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS H 67 CG CD CE NZ REMARK 470 ARG H 76 CG CD NE CZ NH1 NH2 REMARK 470 SER H 77 OG REMARK 470 LYS H 137 CG CD CE NZ REMARK 470 LYS H 222 CG CD CE NZ REMARK 470 LYS L 133 CG CD CE NZ 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 H 98 CA - CB - SG ANGL. DEV. = 7.7 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 LYS H 45 -75.98 -149.64 REMARK 500 ASP H 152 64.38 72.77 REMARK 500 ALA L 59 -36.02 67.70 REMARK 500 ALA L 92 170.67 179.40 REMARK 500 SER L 102 120.87 -39.34 REMARK 500 ASN L 159 -0.04 76.47 REMARK 500 LYS L 197 -61.07 -101.57 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 H 628 DISTANCE = 7.61 ANGSTROMS REMARK 525 HOH L 680 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH L 681 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH L 682 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH L 683 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH L 684 DISTANCE = 7.34 ANGSTROMS DBREF 7M53 A 1146 1161 UNP P0DTC2 SPIKE_SARS2 1146 1161 DBREF 7M53 H 3 222 PDB 7M53 7M53 3 222 DBREF 7M53 L 3 221 PDB 7M53 7M53 3 221 SEQRES 1 A 16 ASP SER PHE LYS GLU GLU LEU ASP LYS TYR PHE LYS ASN SEQRES 2 A 16 HIS THR SER SEQRES 1 H 220 GLU VAL GLN LEU GLN GLN SER GLY PRO VAL LEU VAL LYS SEQRES 2 H 220 PRO GLY ALA SER VAL ARG MET SER CYS LYS ALA SER GLY SEQRES 3 H 220 TYR THR ILE THR ASP TYR TYR LEU ASN TRP VAL LYS GLN SEQRES 4 H 220 SER HIS GLY LYS SER LEU GLU TRP LEU GLY VAL LEU ASN SEQRES 5 H 220 PRO TYR SER GLY GLY SER LEU TYR SER GLN THR PHE LYS SEQRES 6 H 220 GLY LYS ALA THR LEU THR VAL ASP ARG SER SER SER THR SEQRES 7 H 220 ALA TYR LEU GLU LEU ASN SER LEU THR SER GLU ASP SER SEQRES 8 H 220 ALA VAL TYR TYR CYS ALA ARG GLN LEU GLY ARG GLY ASN SEQRES 9 H 220 GLY LEU ASP TYR TRP GLY GLN GLY THR SER VAL THR VAL SEQRES 10 H 220 SER SER VAL SER THR LYS GLY PRO SER VAL PHE PRO LEU SEQRES 11 H 220 ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA SEQRES 12 H 220 LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL SEQRES 13 H 220 THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL SEQRES 14 H 220 HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SEQRES 15 H 220 SER LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU SEQRES 16 H 220 GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SEQRES 17 H 220 SER ASN THR LYS VAL ASP LYS ARG VAL GLU PRO LYS SEQRES 1 L 219 ASN ILE MET MET THR GLN SER PRO SER SER LEU ALA VAL SEQRES 2 L 219 SER ALA GLY GLU LYS VAL THR MET SER CYS LYS SER SER SEQRES 3 L 219 GLN SER VAL LEU HIS SER SER ASP GLN LYS ASN TYR LEU SEQRES 4 L 219 ALA TRP TYR GLN GLN LYS PRO GLY GLN SER PRO LYS LEU SEQRES 5 L 219 LEU ILE TYR TRP ALA SER THR ARG GLU SER GLY VAL PRO SEQRES 6 L 219 ASP ARG PHE THR GLY SER GLY SER GLY THR ASP PHE THR SEQRES 7 L 219 LEU THR ILE SER SER VAL GLN ALA GLU ASP LEU ALA VAL SEQRES 8 L 219 TYR PHE CYS HIS GLN TYR LEU SER SER TYR THR PHE GLY SEQRES 9 L 219 GLY GLY THR LYS LEU GLU ILE LYS ARG THR VAL ALA ALA SEQRES 10 L 219 PRO SER VAL PHE ILE PHE PRO PRO SER ASP GLU GLN LEU SEQRES 11 L 219 LYS SER GLY THR ALA SER VAL VAL CYS LEU LEU ASN ASN SEQRES 12 L 219 PHE TYR PRO ARG GLU ALA LYS VAL GLN TRP LYS VAL ASP SEQRES 13 L 219 ASN ALA LEU GLN SER GLY ASN SER GLN GLU SER VAL THR SEQRES 14 L 219 GLU GLN ASP SER LYS ASP SER THR TYR SER LEU SER SER SEQRES 15 L 219 THR LEU THR LEU SER LYS ALA ASP TYR GLU LYS HIS LYS SEQRES 16 L 219 VAL TYR ALA CYS GLU VAL THR HIS GLN GLY LEU SER SER SEQRES 17 L 219 PRO VAL THR LYS SER PHE ASN ARG GLY GLU CYS HET GOL H 301 6 HET GOL L 301 6 HET GOL L 302 8 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 GOL 3(C3 H8 O3) FORMUL 7 HOH *516(H2 O) HELIX 1 AA1 SER A 1147 PHE A 1156 1 10 HELIX 2 AA2 THR H 30 TYR H 34 5 5 HELIX 3 AA3 ARG H 76 SER H 78 5 3 HELIX 4 AA4 THR H 89 SER H 93 5 5 HELIX 5 AA5 SER H 164 ALA H 166 5 3 HELIX 6 AA6 SER H 195 LEU H 197 5 3 HELIX 7 AA7 LYS H 209 ASN H 212 5 4 HELIX 8 AA8 GLN L 87 LEU L 91 5 5 HELIX 9 AA9 SER L 128 SER L 134 1 7 HELIX 10 AB1 LYS L 190 GLU L 194 1 5 SHEET 1 AA1 4 GLN H 5 GLN H 8 0 SHEET 2 AA1 4 VAL H 20 SER H 27 -1 O LYS H 25 N GLN H 7 SHEET 3 AA1 4 THR H 80 LEU H 85 -1 O ALA H 81 N CYS H 24 SHEET 4 AA1 4 ALA H 70 ASP H 75 -1 N ASP H 75 O THR H 80 SHEET 1 AA2 6 VAL H 12 VAL H 14 0 SHEET 2 AA2 6 THR H 115 VAL H 119 1 O THR H 118 N VAL H 12 SHEET 3 AA2 6 ALA H 94 GLN H 101 -1 N ALA H 94 O VAL H 117 SHEET 4 AA2 6 TYR H 35 GLN H 41 -1 N ASN H 37 O ALA H 99 SHEET 5 AA2 6 GLU H 48 LEU H 53 -1 O GLU H 48 N LYS H 40 SHEET 6 AA2 6 SER H 60 TYR H 62 -1 O LEU H 61 N VAL H 52 SHEET 1 AA3 4 VAL H 12 VAL H 14 0 SHEET 2 AA3 4 THR H 115 VAL H 119 1 O THR H 118 N VAL H 12 SHEET 3 AA3 4 ALA H 94 GLN H 101 -1 N ALA H 94 O VAL H 117 SHEET 4 AA3 4 TYR H 110 TRP H 111 -1 O TYR H 110 N ARG H 100 SHEET 1 AA4 4 SER H 128 LEU H 132 0 SHEET 2 AA4 4 THR H 143 TYR H 153 -1 O LEU H 149 N PHE H 130 SHEET 3 AA4 4 TYR H 184 PRO H 193 -1 O LEU H 186 N VAL H 150 SHEET 4 AA4 4 VAL H 171 THR H 173 -1 N HIS H 172 O VAL H 189 SHEET 1 AA5 4 THR H 139 SER H 140 0 SHEET 2 AA5 4 THR H 143 TYR H 153 -1 O THR H 143 N SER H 140 SHEET 3 AA5 4 TYR H 184 PRO H 193 -1 O LEU H 186 N VAL H 150 SHEET 4 AA5 4 VAL H 177 LEU H 178 -1 N VAL H 177 O SER H 185 SHEET 1 AA6 3 THR H 159 TRP H 162 0 SHEET 2 AA6 3 ILE H 203 HIS H 208 -1 O ASN H 205 N SER H 161 SHEET 3 AA6 3 THR H 213 ARG H 218 -1 O VAL H 215 N VAL H 206 SHEET 1 AA7 4 MET L 6 SER L 9 0 SHEET 2 AA7 4 VAL L 21 SER L 27 -1 O SER L 24 N SER L 9 SHEET 3 AA7 4 ASP L 78 ILE L 83 -1 O PHE L 79 N CYS L 25 SHEET 4 AA7 4 PHE L 70 SER L 75 -1 N THR L 71 O THR L 82 SHEET 1 AA8 6 SER L 12 SER L 16 0 SHEET 2 AA8 6 THR L 109 LYS L 114 1 O GLU L 112 N LEU L 13 SHEET 3 AA8 6 ALA L 92 GLN L 98 -1 N ALA L 92 O LEU L 111 SHEET 4 AA8 6 LEU L 41 GLN L 46 -1 N ALA L 42 O HIS L 97 SHEET 5 AA8 6 LYS L 53 TYR L 57 -1 O LEU L 55 N TRP L 43 SHEET 6 AA8 6 THR L 61 ARG L 62 -1 O THR L 61 N TYR L 57 SHEET 1 AA9 4 SER L 12 SER L 16 0 SHEET 2 AA9 4 THR L 109 LYS L 114 1 O GLU L 112 N LEU L 13 SHEET 3 AA9 4 ALA L 92 GLN L 98 -1 N ALA L 92 O LEU L 111 SHEET 4 AA9 4 THR L 104 PHE L 105 -1 O THR L 104 N GLN L 98 SHEET 1 AB1 2 LEU L 32 HIS L 33 0 SHEET 2 AB1 2 LYS L 38 ASN L 39 -1 O LYS L 38 N HIS L 33 SHEET 1 AB2 4 SER L 121 PHE L 125 0 SHEET 2 AB2 4 THR L 136 PHE L 146 -1 O LEU L 142 N PHE L 123 SHEET 3 AB2 4 TYR L 180 SER L 189 -1 O LEU L 182 N LEU L 143 SHEET 4 AB2 4 SER L 166 VAL L 170 -1 N GLN L 167 O THR L 185 SHEET 1 AB3 4 ALA L 160 LEU L 161 0 SHEET 2 AB3 4 LYS L 152 VAL L 157 -1 N VAL L 157 O ALA L 160 SHEET 3 AB3 4 VAL L 198 THR L 204 -1 O GLU L 202 N GLN L 154 SHEET 4 AB3 4 VAL L 212 ASN L 217 -1 O VAL L 212 N VAL L 203 SSBOND 1 CYS H 24 CYS H 98 1555 1555 2.08 SSBOND 2 CYS H 148 CYS H 204 1555 1555 2.04 SSBOND 3 CYS L 25 CYS L 96 1555 1555 2.09 SSBOND 4 CYS L 141 CYS L 201 1555 1555 2.03 CISPEP 1 PHE H 154 PRO H 155 0 -4.72 CISPEP 2 GLU H 156 PRO H 157 0 2.20 CISPEP 3 SER L 9 PRO L 10 0 -5.60 CISPEP 4 SER L 9 PRO L 10 0 -2.45 CISPEP 5 TYR L 147 PRO L 148 0 2.52 CRYST1 93.183 60.360 79.699 90.00 93.63 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 0.010732 0.000000 0.000681 0.00000 SCALE2 0.000000 0.016567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012572 0.00000