HEADER VIRAL PROTEIN/HYDROLASE 06-DEC-24 9KWY TITLE CRYO-EM STRUCTURE OF SARS-COV-2 RBD IN COMPLEX WITH ACE2 AND MAB 1C4 CAVEAT 9KWY BMA D 3 HAS WRONG CHIRALITY AT ATOM C1 FUC D 4 HAS WRONG CAVEAT 2 9KWY CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROCESSED ANGIOTENSIN-CONVERTING ENZYME 2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: SEQUENCE REFERENCE FOR HOMO SAPIENS (9606) IS NOT COMPND 6 AVAILABLE IN UNIPROT AT THE TIME OF BIOCURATION. CURRENT SEQUENCE COMPND 7 REFERENCE IS FROM UNIPROT ID Q56H28.; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: SPIKE PROTEIN S1; COMPND 10 CHAIN: G; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: 1C4 LIGHT CHAIN; COMPND 14 CHAIN: B; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: 1C4 HEAVY CHAIN; COMPND 17 CHAIN: C SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ACE2; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 10 2; SOURCE 11 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 12 ORGANISM_TAXID: 2697049; SOURCE 13 GENE: S, 2; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 16 MOL_ID: 3; SOURCE 17 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 18 ORGANISM_TAXID: 10090; SOURCE 19 MOL_ID: 4; SOURCE 20 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 21 ORGANISM_TAXID: 10090 KEYWDS SARS-COV-2, NEUTRALIZING ANTIBODY, CRYO-EM, VIRAL PROTEIN/HYDROLASE, KEYWDS 2 VIRAL PROTEIN-HYDROLASE COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR H.SUN,Y.JIANG,S.LI,Q.ZHENG REVDAT 1 18-MAR-26 9KWY 0 JRNL AUTH H.SUN,Y.JIANG,M.LAN,M.ZHOU,G.YI,J.SHEN,T.DENG,L.LIU,Y.HUANG, JRNL AUTH 2 Y.LI,J.SU,Y.LIN,Z.CHEN,L.ZHOU,T.LI,H.YU,T.CHENG,Y.ZHANG, JRNL AUTH 3 L.YUAN,S.LI,Y.GU,P.ZHANG,N.XIA,Q.ZHENG JRNL TITL ENGINEERING A MULTIVALENT ANTIBODY NANOPARTICLE TO OVERCOME JRNL TITL 2 SARS-COV-2 OMICRON IMMUNE EVASION. JRNL REF PLOS PATHOG. V. 21 13744 2025 JRNL REFN ESSN 1553-7374 JRNL PMID 41359663 JRNL DOI 10.1371/JOURNAL.PPAT.1013744 REMARK 2 REMARK 2 RESOLUTION. 2.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.820 REMARK 3 NUMBER OF PARTICLES : 182640 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9KWY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 10-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1300054454. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : SARS-COV-2 RBD IN COMPLEX WITH REMARK 245 ACE2 AND MAB 1C4; SARS-COV-2 REMARK 245 BA.2 SPIKE PROTEIN; ACE2; THE REMARK 245 FRAGMENT OF MAB 1C4 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 600.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1200.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4800.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, G, B, C, D 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 ALA A 132 REMARK 465 CYS A 133 REMARK 465 ASN A 134 REMARK 465 PRO A 135 REMARK 465 ASN A 136 REMARK 465 ASN A 137 REMARK 465 PRO A 138 REMARK 465 GLN A 139 REMARK 465 GLU A 140 REMARK 465 THR A 259 REMARK 465 GLY A 260 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 21 CG2 REMARK 470 GLU A 22 CG CD OE1 OE2 REMARK 470 LYS A 26 CG CD CE NZ REMARK 470 GLU A 35 CG CD OE1 OE2 REMARK 470 GLU A 37 CG CD OE1 OE2 REMARK 470 ASP A 56 CG OD1 OD2 REMARK 470 GLN A 60 CG CD OE1 NE2 REMARK 470 LYS A 61 CG CD CE NZ REMARK 470 MET A 62 CG SD CE REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 LYS A 68 CG CD CE NZ REMARK 470 TYR A 73 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 74 CG CD OE1 OE2 REMARK 470 LYS A 78 CG CD CE NZ REMARK 470 LEU A 85 CG CD1 CD2 REMARK 470 GLU A 87 CG CD OE1 OE2 REMARK 470 HIS A 89 CG ND1 CD2 CE1 NE2 REMARK 470 THR A 91 OG1 CG2 REMARK 470 ARG A 95 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 98 CG CD OE1 NE2 REMARK 470 GLN A 102 CG CD OE1 NE2 REMARK 470 LEU A 108 CG CD1 CD2 REMARK 470 ASP A 111 CG OD1 OD2 REMARK 470 LYS A 112 CG CD CE NZ REMARK 470 GLN A 114 CG CD OE1 NE2 REMARK 470 ASN A 117 CG OD1 ND2 REMARK 470 THR A 118 OG1 CG2 REMARK 470 LEU A 120 CG CD1 CD2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 CYS A 141 SG REMARK 470 LEU A 142 CG CD1 CD2 REMARK 470 LEU A 143 CG CD1 CD2 REMARK 470 GLU A 145 CG CD OE1 OE2 REMARK 470 ASP A 150 CG OD1 OD2 REMARK 470 GLU A 153 CG CD OE1 OE2 REMARK 470 LYS A 156 CG CD CE NZ REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 ARG A 169 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 171 CG CD OE1 OE2 REMARK 470 GLN A 175 CG CD OE1 NE2 REMARK 470 GLU A 181 CG CD OE1 OE2 REMARK 470 GLU A 182 CG CD OE1 OE2 REMARK 470 LEU A 186 CG CD1 CD2 REMARK 470 GLU A 189 CG CD OE1 OE2 REMARK 470 GLU A 197 CG CD OE1 OE2 REMARK 470 ASP A 201 CG OD1 OD2 REMARK 470 ASP A 206 CG OD1 OD2 REMARK 470 GLU A 208 CG CD OE1 OE2 REMARK 470 GLU A 209 CG CD OE1 OE2 REMARK 470 GLU A 210 CG CD OE1 OE2 REMARK 470 TRP A 211 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 211 CZ3 CH2 REMARK 470 ASP A 213 CG OD1 OD2 REMARK 470 ASN A 216 CG OD1 ND2 REMARK 470 SER A 220 OG REMARK 470 GLN A 221 CG CD OE1 NE2 REMARK 470 LYS A 224 CG CD CE NZ REMARK 470 GLU A 227 CG CD OE1 OE2 REMARK 470 HIS A 228 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 232 CG CD OE1 NE2 REMARK 470 GLN A 238 CD OE1 NE2 REMARK 470 LYS A 247 CG CD CE NZ REMARK 470 ASP A 250 CG OD1 OD2 REMARK 470 THR A 251 OG1 CG2 REMARK 470 ARG A 255 CD NE CZ NH1 NH2 REMARK 470 SER A 257 OG REMARK 470 ASN A 277 CG OD1 ND2 REMARK 470 GLN A 287 CG CD OE1 NE2 REMARK 470 LYS A 288 CG CD CE NZ REMARK 470 ASN A 290 CG OD1 ND2 REMARK 470 ILE A 291 CG1 CG2 CD1 REMARK 470 ASP A 295 CG OD1 OD2 REMARK 470 MET A 297 CG SD CE REMARK 470 ASN A 299 CG OD1 ND2 REMARK 470 GLN A 300 CG CD OE1 NE2 REMARK 470 GLU A 310 CG CD OE1 OE2 REMARK 470 LYS A 313 CG CD CE NZ REMARK 470 GLN A 325 CG CD OE1 NE2 REMARK 470 SER A 331 OG REMARK 470 MET A 332 CG SD CE REMARK 470 THR A 334 OG1 CG2 REMARK 470 ASP A 338 CG OD1 OD2 REMARK 470 SER A 339 OG REMARK 470 LYS A 341 CG CD CE NZ REMARK 470 VAL A 342 CG1 CG2 REMARK 470 VAL A 343 CG1 CG2 REMARK 470 CYS A 344 SG REMARK 470 ASP A 350 CG OD1 OD2 REMARK 470 MET A 360 CG SD CE REMARK 470 CYS A 361 SG REMARK 470 LYS A 363 CG CD CE NZ REMARK 470 ASP A 367 CG OD1 OD2 REMARK 470 ASP A 368 CG OD1 OD2 REMARK 470 ASN A 394 CG OD1 ND2 REMARK 470 GLU A 402 CG CD OE1 OE2 REMARK 470 GLU A 406 CG CD OE1 OE2 REMARK 470 ASN A 416 CG OD1 ND2 REMARK 470 THR A 420 OG1 CG2 REMARK 470 SER A 425 OG REMARK 470 SER A 429 OG REMARK 470 GLU A 430 CG CD OE1 OE2 REMARK 470 ASP A 431 CG OD1 OD2 REMARK 470 GLU A 433 CG CD OE1 OE2 REMARK 470 GLU A 435 CG CD OE1 OE2 REMARK 470 MET A 462 CG SD CE REMARK 470 GLU A 467 CG CD OE1 OE2 REMARK 470 LYS A 470 CG CD CE NZ REMARK 470 GLU A 471 CG CD OE1 OE2 REMARK 470 MET A 474 CG SD CE REMARK 470 GLN A 475 CG CD OE1 NE2 REMARK 470 GLU A 479 CG CD OE1 OE2 REMARK 470 GLU A 483 CG CD OE1 OE2 REMARK 470 VAL A 488 CG1 CG2 REMARK 470 GLU A 489 CG CD OE1 OE2 REMARK 470 ASP A 494 CG OD1 OD2 REMARK 470 GLU A 495 CG CD OE1 OE2 REMARK 470 THR A 496 OG1 CG2 REMARK 470 ASP A 499 CG OD1 OD2 REMARK 470 ASP A 509 CG OD1 OD2 REMARK 470 ARG A 518 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 531 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 532 CG1 CG2 CD1 REMARK 470 LYS A 534 CG CD CE NZ REMARK 470 GLU A 536 CG CD OE1 OE2 REMARK 470 LEU A 539 CG CD1 CD2 REMARK 470 LYS A 541 CG CD CE NZ REMARK 470 ASP A 543 CG OD1 OD2 REMARK 470 GLU A 549 CG CD OE1 OE2 REMARK 470 LYS A 552 CG CD CE NZ REMARK 470 GLU A 571 CG CD OE1 OE2 REMARK 470 GLU A 576 CG CD OE1 OE2 REMARK 470 LYS A 577 CG CD CE NZ REMARK 470 LYS A 578 CG CD CE NZ REMARK 470 LYS A 586 CD CE NZ REMARK 470 GLU A 589 CG CD OE1 OE2 REMARK 470 LYS A 596 CG CD CE NZ REMARK 470 GLU A 597 CG CD OE1 OE2 REMARK 470 ASN A 599 CG OD1 ND2 REMARK 470 ASN G 334 CG OD1 ND2 REMARK 470 LEU G 335 CG CD1 CD2 REMARK 470 SER G 349 OG REMARK 470 LYS G 356 CG CD CE NZ REMARK 470 ARG G 357 CG CD NE CZ NH1 NH2 REMARK 470 ASN G 360 CG OD1 ND2 REMARK 470 VAL G 362 CG1 CG2 REMARK 470 ASP G 364 CG OD1 OD2 REMARK 470 SER G 366 OG REMARK 470 VAL G 367 CG1 CG2 REMARK 470 ASN G 370 CG OD1 ND2 REMARK 470 SER G 383 OG REMARK 470 THR G 385 OG1 CG2 REMARK 470 LYS G 386 CG CD CE NZ REMARK 470 ASN G 388 CG OD1 ND2 REMARK 470 ASP G 389 CG OD1 OD2 REMARK 470 LEU G 390 CG CD1 CD2 REMARK 470 ASP G 428 CG OD1 OD2 REMARK 470 LYS G 458 CG CD CE NZ REMARK 470 SER G 459 OG REMARK 470 LEU G 461 CG CD1 CD2 REMARK 470 LYS G 462 CG CD CE NZ REMARK 470 GLU G 465 CG CD OE1 OE2 REMARK 470 ASP G 467 CG OD1 OD2 REMARK 470 GLU G 471 CG CD OE1 OE2 REMARK 470 GLN G 474 CG CD OE1 NE2 REMARK 470 ASN G 481 CG OD1 ND2 REMARK 470 GLU G 484 CG CD OE1 OE2 REMARK 470 GLU G 516 CG CD OE1 OE2 REMARK 470 LEU G 517 CG CD1 CD2 REMARK 470 CYS G 525 SG REMARK 470 ASP B 1 CG OD1 OD2 REMARK 470 SER B 7 OG REMARK 470 THR B 10 OG1 CG2 REMARK 470 ASP B 17 CG OD1 OD2 REMARK 470 VAL B 19 CG1 CG2 REMARK 470 ARG B 24 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 27 CG CD OE1 NE2 REMARK 470 HIS B 41 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 42 CG CD OE1 OE2 REMARK 470 ASP B 70 CG OD1 OD2 REMARK 470 GLU B 79 CG CD OE1 OE2 REMARK 470 ASP B 82 CG OD1 OD2 REMARK 470 PHE B 83 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 105 CG CD OE1 OE2 REMARK 470 ILE C 2 CG1 CG2 CD1 REMARK 470 LYS C 13 CG CD CE NZ REMARK 470 VAL C 18 CG1 CG2 REMARK 470 SER C 21 OG REMARK 470 LYS C 23 CG CD CE NZ REMARK 470 GLU C 73 CG CD OE1 OE2 REMARK 470 THR C 74 OG1 CG2 REMARK 470 SER C 75 OG REMARK 470 THR C 76 OG1 CG2 REMARK 470 SER C 119 OG 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 O4 NAG D 1 O5 NAG D 2 1.95 REMARK 500 O6 NAG D 1 C2 FUC D 4 2.09 REMARK 500 OD2 ASP G 398 OH TYR G 423 2.10 REMARK 500 O4 NAG D 2 O5 BMA D 3 2.14 REMARK 500 O6 NAG D 1 O2 FUC D 4 2.17 REMARK 500 OE2 GLU A 38 OH TYR G 449 2.17 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 THR A 55 -165.72 -160.79 REMARK 500 ALA A 86 3.52 -68.68 REMARK 500 SER A 106 19.87 58.72 REMARK 500 ASP A 213 109.79 -59.91 REMARK 500 LEU A 266 35.90 -99.01 REMARK 500 PRO A 280 0.43 -65.83 REMARK 500 SER A 301 65.02 60.72 REMARK 500 ASP A 338 -165.87 -78.79 REMARK 500 ASP A 355 67.38 60.42 REMARK 500 ASN G 343 51.46 -90.40 REMARK 500 PHE G 392 -168.24 -129.15 REMARK 500 PRO G 426 -177.52 -68.55 REMARK 500 ASN G 487 18.28 59.77 REMARK 500 PRO B 8 -159.12 -86.32 REMARK 500 ASN B 32 40.57 -108.40 REMARK 500 ALA B 51 -11.18 74.04 REMARK 500 SER B 52 -23.36 -140.14 REMARK 500 TYR C 32 -169.77 -126.44 REMARK 500 ARG C 67 16.22 51.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-62620 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF SARS-COV-2 RBD IN COMPLEX WITH ACE2 AND MAB 1C4 DBREF 9KWY A 19 599 UNP Q56H28 ACE2_FELCA 19 599 DBREF 9KWY G 334 517 UNP P0DTC2 SPIKE_SARS2 334 517 DBREF 9KWY B 1 107 PDB 9KWY 9KWY 1 107 DBREF 9KWY C 1 119 PDB 9KWY 9KWY 1 119 SEQADV 9KWY VAL G 524 UNP P0DTC2 EXPRESSION TAG SEQADV 9KWY CYS G 525 UNP P0DTC2 EXPRESSION TAG SEQRES 1 A 581 SER THR THR GLU GLU LEU ALA LYS THR PHE LEU GLU LYS SEQRES 2 A 581 PHE ASN HIS GLU ALA GLU GLU LEU SER TYR GLN SER SER SEQRES 3 A 581 LEU ALA SER TRP ASN TYR ASN THR ASN ILE THR ASP GLU SEQRES 4 A 581 ASN VAL GLN LYS MET ASN GLU ALA GLY ALA LYS TRP SER SEQRES 5 A 581 ALA PHE TYR GLU GLU GLN SER LYS LEU ALA LYS THR TYR SEQRES 6 A 581 PRO LEU ALA GLU ILE HIS ASN THR THR VAL LYS ARG GLN SEQRES 7 A 581 LEU GLN ALA LEU GLN GLN SER GLY SER SER VAL LEU SER SEQRES 8 A 581 ALA ASP LYS SER GLN ARG LEU ASN THR ILE LEU ASN ALA SEQRES 9 A 581 MET SER THR ILE TYR SER THR GLY LYS ALA CYS ASN PRO SEQRES 10 A 581 ASN ASN PRO GLN GLU CYS LEU LEU LEU GLU PRO GLY LEU SEQRES 11 A 581 ASP ASP ILE MET GLU ASN SER LYS ASP TYR ASN GLU ARG SEQRES 12 A 581 LEU TRP ALA TRP GLU GLY TRP ARG ALA GLU VAL GLY LYS SEQRES 13 A 581 GLN LEU ARG PRO LEU TYR GLU GLU TYR VAL ALA LEU LYS SEQRES 14 A 581 ASN GLU MET ALA ARG ALA ASN ASN TYR GLU ASP TYR GLY SEQRES 15 A 581 ASP TYR TRP ARG GLY ASP TYR GLU GLU GLU TRP THR ASP SEQRES 16 A 581 GLY TYR ASN TYR SER ARG SER GLN LEU ILE LYS ASP VAL SEQRES 17 A 581 GLU HIS THR PHE THR GLN ILE LYS PRO LEU TYR GLN HIS SEQRES 18 A 581 LEU HIS ALA TYR VAL ARG ALA LYS LEU MET ASP THR TYR SEQRES 19 A 581 PRO SER ARG ILE SER PRO THR GLY CYS LEU PRO ALA HIS SEQRES 20 A 581 LEU LEU GLY ASP MET TRP GLY ARG PHE TRP THR ASN LEU SEQRES 21 A 581 TYR PRO LEU THR VAL PRO PHE GLY GLN LYS PRO ASN ILE SEQRES 22 A 581 ASP VAL THR ASP ALA MET VAL ASN GLN SER TRP ASP ALA SEQRES 23 A 581 ARG ARG ILE PHE LYS GLU ALA GLU LYS PHE PHE VAL SER SEQRES 24 A 581 VAL GLY LEU PRO ASN MET THR GLN GLY PHE TRP GLU ASN SEQRES 25 A 581 SER MET LEU THR GLU PRO GLY ASP SER ARG LYS VAL VAL SEQRES 26 A 581 CYS HIS PRO THR ALA TRP ASP LEU GLY LYS GLY ASP PHE SEQRES 27 A 581 ARG ILE LYS MET CYS THR LYS VAL THR MET ASP ASP PHE SEQRES 28 A 581 LEU THR ALA HIS HIS GLU MET GLY HIS ILE GLN TYR ASP SEQRES 29 A 581 MET ALA TYR ALA VAL GLN PRO PHE LEU LEU ARG ASN GLY SEQRES 30 A 581 ALA ASN GLU GLY PHE HIS GLU ALA VAL GLY GLU ILE MET SEQRES 31 A 581 SER LEU SER ALA ALA THR PRO ASN HIS LEU LYS THR ILE SEQRES 32 A 581 GLY LEU LEU SER PRO GLY PHE SER GLU ASP SER GLU THR SEQRES 33 A 581 GLU ILE ASN PHE LEU LEU LYS GLN ALA LEU THR ILE VAL SEQRES 34 A 581 GLY THR LEU PRO PHE THR TYR MET LEU GLU LYS TRP ARG SEQRES 35 A 581 TRP MET VAL PHE LYS GLY GLU ILE PRO LYS GLU GLN TRP SEQRES 36 A 581 MET GLN LYS TRP TRP GLU MET LYS ARG GLU ILE VAL GLY SEQRES 37 A 581 VAL VAL GLU PRO VAL PRO HIS ASP GLU THR TYR CYS ASP SEQRES 38 A 581 PRO ALA SER LEU PHE HIS VAL ALA ASN ASP TYR SER PHE SEQRES 39 A 581 ILE ARG TYR TYR THR ARG THR ILE TYR GLN PHE GLN PHE SEQRES 40 A 581 GLN GLU ALA LEU CYS ARG ILE ALA LYS HIS GLU GLY PRO SEQRES 41 A 581 LEU HIS LYS CYS ASP ILE SER ASN SER SER GLU ALA GLY SEQRES 42 A 581 LYS LYS LEU LEU GLN MET LEU THR LEU GLY LYS SER LYS SEQRES 43 A 581 PRO TRP THR LEU ALA LEU GLU HIS VAL VAL GLY GLU LYS SEQRES 44 A 581 LYS MET ASN VAL THR PRO LEU LEU LYS TYR PHE GLU PRO SEQRES 45 A 581 LEU PHE THR TRP LEU LYS GLU GLN ASN SEQRES 1 G 186 ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA THR ARG SEQRES 2 G 186 PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE SER SEQRES 3 G 186 ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SER ALA SEQRES 4 G 186 SER PHE SER THR PHE LYS CYS TYR GLY VAL SER PRO THR SEQRES 5 G 186 LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA ASP SEQRES 6 G 186 SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN ILE ALA SEQRES 7 G 186 PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN TYR LYS SEQRES 8 G 186 LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP ASN SEQRES 9 G 186 SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN TYR ASN SEQRES 10 G 186 TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU LYS PRO SEQRES 11 G 186 PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA GLY SEQRES 12 G 186 SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN CYS TYR SEQRES 13 G 186 PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR ASN GLY SEQRES 14 G 186 VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SER PHE SEQRES 15 G 186 GLU LEU VAL CYS SEQRES 1 B 107 ASP ILE VAL LEU THR GLN SER PRO ALA THR LEU SER VAL SEQRES 2 B 107 THR PRO GLY ASP ASN VAL SER LEU SER CYS ARG ALA SER SEQRES 3 B 107 GLN ILE ILE SER ASN ASN LEU HIS TRP TYR GLN GLN LYS SEQRES 4 B 107 SER HIS GLU SER PRO ARG LEU LEU ILE LYS TYR ALA SER SEQRES 5 B 107 GLN SER ILE SER GLY ILE PRO SER ARG PHE SER GLY SER SEQRES 6 B 107 GLY SER GLY THR ASP PHE THR LEU SER ILE ASN SER VAL SEQRES 7 B 107 GLU THR GLU ASP PHE GLY MET TYR PHE CYS GLN GLN SER SEQRES 8 B 107 ASN THR TRP PRO LEU THR CYS GLY SER GLY THR LYS LEU SEQRES 9 B 107 GLU LEU ASN SEQRES 1 C 119 GLN ILE GLN LEU VAL GLN SER GLY PRO GLU LEU LYS LYS SEQRES 2 C 119 PRO GLY GLU THR VAL LYS ILE SER CYS LYS ALA SER GLY SEQRES 3 C 119 TYR THR PHE THR ASP TYR GLY LEU ASN TRP VAL LYS GLN SEQRES 4 C 119 ALA PRO GLY LYS GLY LEU LYS TRP MET GLY TRP ILE ASN SEQRES 5 C 119 THR TYR SER GLY GLU PRO THR TYR ASN ASP GLU PHE ARG SEQRES 6 C 119 GLY ARG PHE ALA PHE SER LEU GLU THR SER THR ILE THR SEQRES 7 C 119 ALA TYR LEU LYS ILE ASN ASN LEU LYS ASN GLU ASP THR SEQRES 8 C 119 ALA THR TYR PHE CYS ALA ARG GLY GLY ASN TRP ASP TRP SEQRES 9 C 119 TYR PHE ASP VAL TRP GLY ALA GLY THR THR VAL THR VAL SEQRES 10 C 119 SER SER HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET FUC D 4 10 HET NAG A 601 14 HET NAG A 602 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 5 NAG 4(C8 H15 N O6) FORMUL 5 BMA C6 H12 O6 FORMUL 5 FUC C6 H12 O5 HELIX 1 AA1 THR A 20 ASN A 53 1 34 HELIX 2 AA2 THR A 55 LYS A 81 1 27 HELIX 3 AA3 THR A 82 TYR A 83 5 2 HELIX 4 AA4 PRO A 84 ILE A 88 5 5 HELIX 5 AA5 ASN A 90 GLN A 102 1 13 HELIX 6 AA6 SER A 109 THR A 129 1 21 HELIX 7 AA7 PRO A 146 ASN A 154 1 9 HELIX 8 AA8 ASP A 157 VAL A 172 1 16 HELIX 9 AA9 LEU A 176 ASN A 194 1 19 HELIX 10 AB1 ASP A 198 ARG A 204 1 7 HELIX 11 AB2 SER A 218 TYR A 252 1 35 HELIX 12 AB3 TRP A 275 THR A 282 5 8 HELIX 13 AB4 VAL A 293 GLN A 300 1 8 HELIX 14 AB5 ASP A 303 GLY A 319 1 17 HELIX 15 AB6 THR A 324 SER A 331 1 8 HELIX 16 AB7 MET A 366 ALA A 386 1 21 HELIX 17 AB8 VAL A 387 GLN A 388 5 2 HELIX 18 AB9 PRO A 389 ARG A 393 5 5 HELIX 19 AC1 GLU A 398 ALA A 413 1 16 HELIX 20 AC2 THR A 414 ILE A 421 1 8 HELIX 21 AC3 ASP A 431 VAL A 447 1 17 HELIX 22 AC4 GLY A 448 GLY A 466 1 19 HELIX 23 AC5 GLN A 472 ILE A 484 1 13 HELIX 24 AC6 ASP A 499 SER A 502 5 4 HELIX 25 AC7 LEU A 503 ASN A 508 1 6 HELIX 26 AC8 ILE A 513 ALA A 533 1 21 HELIX 27 AC9 SER A 547 THR A 559 1 13 HELIX 28 AD1 PRO A 565 GLY A 575 1 11 HELIX 29 AD2 VAL A 581 PHE A 588 1 8 HELIX 30 AD3 PHE A 588 ASN A 599 1 12 HELIX 31 AD4 PRO G 337 ASN G 343 1 7 HELIX 32 AD5 ASP G 364 SER G 371 1 8 HELIX 33 AD6 THR G 385 ASP G 389 5 5 HELIX 34 AD7 ASP G 405 VAL G 407 5 3 HELIX 35 AD8 GLY G 416 TYR G 421 1 6 HELIX 36 AD9 GLU B 79 PHE B 83 5 5 HELIX 37 AE1 THR C 28 TYR C 32 5 5 SHEET 1 AA1 2 LEU A 262 PRO A 263 0 SHEET 2 AA1 2 VAL A 487 VAL A 488 1 O VAL A 488 N LEU A 262 SHEET 1 AA2 2 THR A 347 ASP A 350 0 SHEET 2 AA2 2 PHE A 356 LYS A 359 -1 O LYS A 359 N THR A 347 SHEET 1 AA3 5 ASN G 354 ILE G 358 0 SHEET 2 AA3 5 ASN G 394 ARG G 403 -1 O VAL G 395 N ILE G 358 SHEET 3 AA3 5 PRO G 507 GLU G 516 -1 O VAL G 512 N ASP G 398 SHEET 4 AA3 5 CYS G 432 ASN G 437 -1 N ILE G 434 O VAL G 511 SHEET 5 AA3 5 THR G 376 CYS G 379 -1 N LYS G 378 O VAL G 433 SHEET 1 AA4 2 LEU G 452 ARG G 454 0 SHEET 2 AA4 2 LEU G 492 SER G 494 -1 O GLN G 493 N TYR G 453 SHEET 1 AA5 2 TYR G 473 GLN G 474 0 SHEET 2 AA5 2 CYS G 488 TYR G 489 -1 O TYR G 489 N TYR G 473 SHEET 1 AA6 3 LEU B 4 GLN B 6 0 SHEET 2 AA6 3 CYS B 23 ILE B 29 -1 O ARG B 24 N THR B 5 SHEET 3 AA6 3 GLY B 68 PHE B 71 -1 O THR B 69 N ALA B 25 SHEET 1 AA7 5 THR B 10 VAL B 13 0 SHEET 2 AA7 5 THR B 102 LEU B 106 1 O LYS B 103 N LEU B 11 SHEET 3 AA7 5 GLY B 84 GLN B 90 -1 N GLY B 84 O LEU B 104 SHEET 4 AA7 5 LEU B 33 GLN B 38 -1 N TYR B 36 O PHE B 87 SHEET 5 AA7 5 ARG B 45 LEU B 46 -1 O ARG B 45 N GLN B 37 SHEET 1 AA8 4 THR B 10 VAL B 13 0 SHEET 2 AA8 4 THR B 102 LEU B 106 1 O LYS B 103 N LEU B 11 SHEET 3 AA8 4 GLY B 84 GLN B 90 -1 N GLY B 84 O LEU B 104 SHEET 4 AA8 4 THR B 97 CYS B 98 -1 O THR B 97 N GLN B 90 SHEET 1 AA9 3 VAL B 19 SER B 20 0 SHEET 2 AA9 3 LEU B 73 ILE B 75 -1 O ILE B 75 N VAL B 19 SHEET 3 AA9 3 PHE B 62 GLY B 64 -1 N SER B 63 O SER B 74 SHEET 1 AB1 2 GLN C 3 LEU C 4 0 SHEET 2 AB1 2 ALA C 24 SER C 25 -1 O SER C 25 N GLN C 3 SHEET 1 AB2 6 GLU C 10 LYS C 12 0 SHEET 2 AB2 6 THR C 113 VAL C 117 1 O THR C 116 N GLU C 10 SHEET 3 AB2 6 ALA C 92 GLY C 99 -1 N TYR C 94 O THR C 113 SHEET 4 AB2 6 LEU C 34 GLN C 39 -1 N ASN C 35 O ALA C 97 SHEET 5 AB2 6 LYS C 46 ILE C 51 -1 O MET C 48 N TRP C 36 SHEET 6 AB2 6 PRO C 58 TYR C 60 -1 O THR C 59 N TRP C 50 SHEET 1 AB3 4 GLU C 10 LYS C 12 0 SHEET 2 AB3 4 THR C 113 VAL C 117 1 O THR C 116 N GLU C 10 SHEET 3 AB3 4 ALA C 92 GLY C 99 -1 N TYR C 94 O THR C 113 SHEET 4 AB3 4 PHE C 106 TRP C 109 -1 O VAL C 108 N ARG C 98 SHEET 1 AB4 3 VAL C 18 SER C 21 0 SHEET 2 AB4 3 ALA C 79 ILE C 83 -1 O ILE C 83 N VAL C 18 SHEET 3 AB4 3 PHE C 68 LEU C 72 -1 N SER C 71 O TYR C 80 SSBOND 1 CYS A 530 CYS A 542 1555 1555 2.03 SSBOND 2 CYS G 379 CYS G 432 1555 1555 2.03 SSBOND 3 CYS G 480 CYS G 488 1555 1555 2.03 SSBOND 4 CYS B 23 CYS B 88 1555 1555 2.03 SSBOND 5 CYS C 22 CYS C 96 1555 1555 2.02 LINK ND2 ASN A 90 C1 NAG A 601 1555 1555 1.44 LINK ND2 ASN A 546 C1 NAG A 602 1555 1555 1.43 LINK ND2 ASN G 343 C1 NAG D 1 1555 1555 1.45 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.37 LINK O6 NAG D 1 C1 FUC D 4 1555 1555 1.37 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.37 CISPEP 1 GLU A 145 PRO A 146 0 -1.76 CISPEP 2 SER B 7 PRO B 8 0 -2.32 CISPEP 3 TRP B 94 PRO B 95 0 -0.37 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 CONECT 521 7319 CONECT 3699 3771 CONECT 3771 3699 CONECT 3798 7333 CONECT 4259 7270 CONECT 4524 4918 CONECT 4918 4524 CONECT 5282 5332 CONECT 5332 5282 CONECT 5727 6204 CONECT 6204 5727 CONECT 6501 7089 CONECT 7089 6501 CONECT 7270 4259 7271 7281 CONECT 7271 7270 7272 7278 CONECT 7272 7271 7273 7279 CONECT 7273 7272 7274 7280 CONECT 7274 7273 7275 7281 CONECT 7275 7274 7282 CONECT 7276 7277 7278 7283 CONECT 7277 7276 CONECT 7278 7271 7276 CONECT 7279 7272 CONECT 7280 7273 7284 CONECT 7281 7270 7274 CONECT 7282 7275 7309 CONECT 7283 7276 CONECT 7284 7280 7285 7295 CONECT 7285 7284 7286 7292 CONECT 7286 7285 7287 7293 CONECT 7287 7286 7288 7294 CONECT 7288 7287 7289 7295 CONECT 7289 7288 7296 CONECT 7290 7291 7292 7297 CONECT 7291 7290 CONECT 7292 7285 7290 CONECT 7293 7286 CONECT 7294 7287 7298 CONECT 7295 7284 7288 CONECT 7296 7289 CONECT 7297 7290 CONECT 7298 7294 7299 7307 CONECT 7299 7298 7300 7304 CONECT 7300 7299 7301 7305 CONECT 7301 7300 7302 7306 CONECT 7302 7301 7303 7307 CONECT 7303 7302 7308 CONECT 7304 7299 CONECT 7305 7300 CONECT 7306 7301 CONECT 7307 7298 7302 CONECT 7308 7303 CONECT 7309 7282 7310 7318 CONECT 7310 7309 7311 7315 CONECT 7311 7310 7312 7316 CONECT 7312 7311 7313 7317 CONECT 7313 7312 7314 7318 CONECT 7314 7313 CONECT 7315 7310 CONECT 7316 7311 CONECT 7317 7312 CONECT 7318 7309 7313 CONECT 7319 521 7320 7330 CONECT 7320 7319 7321 7327 CONECT 7321 7320 7322 7328 CONECT 7322 7321 7323 7329 CONECT 7323 7322 7324 7330 CONECT 7324 7323 7331 CONECT 7325 7326 7327 7332 CONECT 7326 7325 CONECT 7327 7320 7325 CONECT 7328 7321 CONECT 7329 7322 CONECT 7330 7319 7323 CONECT 7331 7324 CONECT 7332 7325 CONECT 7333 3798 7334 7344 CONECT 7334 7333 7335 7341 CONECT 7335 7334 7336 7342 CONECT 7336 7335 7337 7343 CONECT 7337 7336 7338 7344 CONECT 7338 7337 7345 CONECT 7339 7340 7341 7346 CONECT 7340 7339 CONECT 7341 7334 7339 CONECT 7342 7335 CONECT 7343 7336 CONECT 7344 7333 7337 CONECT 7345 7338 CONECT 7346 7339 MASTER 368 0 6 37 43 0 0 6 7342 4 90 79 END