HEADER VIRAL PROTEIN 04-FEB-21 7E23 TITLE SARS-COV-2 SPIKE IN COMPLEX WITH THE CA521 NEUTRALIZING ANTIBODY FAB TITLE 2 (FOCUSED REFINEMENT ON FAB-RBD) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPIKE PROTEIN S1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CA521 HEAVY CHAIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: CA521 LIGHT CHAIN; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 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: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 10029 KEYWDS SPIKE, SARS-COV-2, ANTIBODY, VIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR C.LIU,D.SONG,C.DOU REVDAT 2 30-OCT-24 7E23 1 REMARK REVDAT 1 05-MAY-21 7E23 0 JRNL AUTH D.SONG,W.WANG,C.DONG,Z.NING,X.LIU,C.LIU,G.DU,C.SHA,K.WANG, JRNL AUTH 2 J.LU,B.SUN,Y.ZHAO,Q.WANG,H.XU,Y.LI,Z.SHEN,J.JIAO,R.WANG, JRNL AUTH 3 J.TIAN,W.LIU,L.WANG,Y.Q.DENG,C.DOU JRNL TITL STRUCTURE AND FUNCTION ANALYSIS OF A POTENT HUMAN JRNL TITL 2 NEUTRALIZING ANTIBODY CA521 FALA AGAINST SARS-COV-2. JRNL REF COMMUN BIOL V. 4 500 2021 JRNL REFN ESSN 2399-3642 JRNL PMID 33893388 JRNL DOI 10.1038/S42003-021-02029-W REMARK 2 REMARK 2 RESOLUTION. 3.30 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) : 3.300 REMARK 3 NUMBER OF PARTICLES : 328169 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING ONLY REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 7E23 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-FEB-21. REMARK 100 THE DEPOSITION ID IS D_1300020612. 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 : CA521 FAB-RBD SUB-COMPLEX; REMARK 245 SPIKE PROTEIN S1 2; CA521 HEAVY REMARK 245 CHAIN; CA521 LIGHT CHAIN 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 : 8.00 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 : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL 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) : 5000.00 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 GLU B 1 REMARK 465 VAL B 2 REMARK 465 GLN B 3 REMARK 465 LEU B 4 REMARK 465 GLN B 5 REMARK 465 GLN B 6 REMARK 465 TRP B 7 REMARK 465 GLY B 8 REMARK 465 ALA B 9 REMARK 465 VAL B 85 REMARK 465 THR B 86 REMARK 465 ALA B 87 REMARK 465 ALA B 88 REMARK 465 SER B 121 REMARK 465 SER B 122 REMARK 465 ALA B 123 REMARK 465 SER B 124 REMARK 465 THR B 125 REMARK 465 LYS B 126 REMARK 465 GLY B 127 REMARK 465 PRO B 128 REMARK 465 SER B 129 REMARK 465 VAL B 130 REMARK 465 PHE B 131 REMARK 465 PRO B 132 REMARK 465 LEU B 133 REMARK 465 ALA B 134 REMARK 465 PRO B 135 REMARK 465 CYS B 136 REMARK 465 SER B 137 REMARK 465 ARG B 138 REMARK 465 SER B 139 REMARK 465 THR B 140 REMARK 465 SER B 141 REMARK 465 GLU B 142 REMARK 465 SER B 143 REMARK 465 THR B 144 REMARK 465 ALA B 145 REMARK 465 ALA B 146 REMARK 465 LEU B 147 REMARK 465 GLY B 148 REMARK 465 CYS B 149 REMARK 465 LEU B 150 REMARK 465 VAL B 151 REMARK 465 LYS B 152 REMARK 465 ASP B 153 REMARK 465 TYR B 154 REMARK 465 PHE B 155 REMARK 465 PRO B 156 REMARK 465 GLU B 157 REMARK 465 PRO B 158 REMARK 465 VAL B 159 REMARK 465 THR B 160 REMARK 465 VAL B 161 REMARK 465 SER B 162 REMARK 465 TRP B 163 REMARK 465 ASN B 164 REMARK 465 SER B 165 REMARK 465 GLY B 166 REMARK 465 ALA B 167 REMARK 465 LEU B 168 REMARK 465 THR B 169 REMARK 465 SER B 170 REMARK 465 GLY B 171 REMARK 465 VAL B 172 REMARK 465 HIS B 173 REMARK 465 THR B 174 REMARK 465 PHE B 175 REMARK 465 PRO B 176 REMARK 465 ALA B 177 REMARK 465 VAL B 178 REMARK 465 LEU B 179 REMARK 465 GLN B 180 REMARK 465 SER B 181 REMARK 465 SER B 182 REMARK 465 GLY B 183 REMARK 465 LEU B 184 REMARK 465 TYR B 185 REMARK 465 SER B 186 REMARK 465 LEU B 187 REMARK 465 SER B 188 REMARK 465 SER B 189 REMARK 465 VAL B 190 REMARK 465 VAL B 191 REMARK 465 THR B 192 REMARK 465 VAL B 193 REMARK 465 PRO B 194 REMARK 465 SER B 195 REMARK 465 SER B 196 REMARK 465 SER B 197 REMARK 465 LEU B 198 REMARK 465 GLY B 199 REMARK 465 THR B 200 REMARK 465 LYS B 201 REMARK 465 THR B 202 REMARK 465 TYR B 203 REMARK 465 THR B 204 REMARK 465 CYS B 205 REMARK 465 ASN B 206 REMARK 465 VAL B 207 REMARK 465 ASP B 208 REMARK 465 HIS B 209 REMARK 465 LYS B 210 REMARK 465 PRO B 211 REMARK 465 SER B 212 REMARK 465 ASN B 213 REMARK 465 THR B 214 REMARK 465 LYS B 215 REMARK 465 VAL B 216 REMARK 465 ASP B 217 REMARK 465 LYS B 218 REMARK 465 ARG B 219 REMARK 465 VAL B 220 REMARK 465 GLU B 221 REMARK 465 SER B 222 REMARK 465 LYS B 223 REMARK 465 TYR B 224 REMARK 465 GLY B 225 REMARK 465 PRO B 226 REMARK 465 PRO B 227 REMARK 465 CYS B 228 REMARK 465 PRO B 229 REMARK 465 PRO B 230 REMARK 465 CYS B 231 REMARK 465 PRO B 232 REMARK 465 ALA B 233 REMARK 465 PRO B 234 REMARK 465 GLU B 235 REMARK 465 ALA B 236 REMARK 465 ALA B 237 REMARK 465 GLY B 238 REMARK 465 GLY B 239 REMARK 465 PRO B 240 REMARK 465 SER B 241 REMARK 465 VAL B 242 REMARK 465 PHE B 243 REMARK 465 LEU B 244 REMARK 465 PHE B 245 REMARK 465 PRO B 246 REMARK 465 PRO B 247 REMARK 465 LYS B 248 REMARK 465 PRO B 249 REMARK 465 LYS B 250 REMARK 465 ASP B 251 REMARK 465 THR B 252 REMARK 465 LEU B 253 REMARK 465 MET B 254 REMARK 465 ILE B 255 REMARK 465 SER B 256 REMARK 465 ARG B 257 REMARK 465 THR B 258 REMARK 465 PRO B 259 REMARK 465 GLU B 260 REMARK 465 VAL B 261 REMARK 465 THR B 262 REMARK 465 CYS B 263 REMARK 465 VAL B 264 REMARK 465 VAL B 265 REMARK 465 VAL B 266 REMARK 465 ASP B 267 REMARK 465 VAL B 268 REMARK 465 SER B 269 REMARK 465 GLN B 270 REMARK 465 GLU B 271 REMARK 465 ASP B 272 REMARK 465 PRO B 273 REMARK 465 GLU B 274 REMARK 465 VAL B 275 REMARK 465 GLN B 276 REMARK 465 PHE B 277 REMARK 465 ASN B 278 REMARK 465 TRP B 279 REMARK 465 TYR B 280 REMARK 465 VAL B 281 REMARK 465 ASP B 282 REMARK 465 GLY B 283 REMARK 465 VAL B 284 REMARK 465 GLU B 285 REMARK 465 VAL B 286 REMARK 465 HIS B 287 REMARK 465 ASN B 288 REMARK 465 ALA B 289 REMARK 465 LYS B 290 REMARK 465 THR B 291 REMARK 465 LYS B 292 REMARK 465 PRO B 293 REMARK 465 ARG B 294 REMARK 465 GLU B 295 REMARK 465 GLU B 296 REMARK 465 GLN B 297 REMARK 465 PHE B 298 REMARK 465 ASN B 299 REMARK 465 SER B 300 REMARK 465 THR B 301 REMARK 465 TYR B 302 REMARK 465 ARG B 303 REMARK 465 VAL B 304 REMARK 465 VAL B 305 REMARK 465 SER B 306 REMARK 465 VAL B 307 REMARK 465 LEU B 308 REMARK 465 THR B 309 REMARK 465 VAL B 310 REMARK 465 LEU B 311 REMARK 465 HIS B 312 REMARK 465 GLN B 313 REMARK 465 ASP B 314 REMARK 465 TRP B 315 REMARK 465 LEU B 316 REMARK 465 ASN B 317 REMARK 465 GLY B 318 REMARK 465 LYS B 319 REMARK 465 GLU B 320 REMARK 465 TYR B 321 REMARK 465 LYS B 322 REMARK 465 CYS B 323 REMARK 465 LYS B 324 REMARK 465 VAL B 325 REMARK 465 SER B 326 REMARK 465 ASN B 327 REMARK 465 LYS B 328 REMARK 465 GLY B 329 REMARK 465 LEU B 330 REMARK 465 PRO B 331 REMARK 465 SER B 332 REMARK 465 SER B 333 REMARK 465 ILE B 334 REMARK 465 GLU B 335 REMARK 465 LYS B 336 REMARK 465 THR B 337 REMARK 465 ILE B 338 REMARK 465 SER B 339 REMARK 465 LYS B 340 REMARK 465 ALA B 341 REMARK 465 LYS B 342 REMARK 465 GLY B 343 REMARK 465 GLN B 344 REMARK 465 PRO B 345 REMARK 465 ARG B 346 REMARK 465 GLU B 347 REMARK 465 PRO B 348 REMARK 465 GLN B 349 REMARK 465 VAL B 350 REMARK 465 TYR B 351 REMARK 465 THR B 352 REMARK 465 LEU B 353 REMARK 465 PRO B 354 REMARK 465 PRO B 355 REMARK 465 SER B 356 REMARK 465 GLN B 357 REMARK 465 GLU B 358 REMARK 465 GLU B 359 REMARK 465 MET B 360 REMARK 465 THR B 361 REMARK 465 LYS B 362 REMARK 465 ASN B 363 REMARK 465 GLN B 364 REMARK 465 VAL B 365 REMARK 465 SER B 366 REMARK 465 LEU B 367 REMARK 465 THR B 368 REMARK 465 CYS B 369 REMARK 465 LEU B 370 REMARK 465 VAL B 371 REMARK 465 LYS B 372 REMARK 465 GLY B 373 REMARK 465 PHE B 374 REMARK 465 TYR B 375 REMARK 465 PRO B 376 REMARK 465 SER B 377 REMARK 465 ASP B 378 REMARK 465 ILE B 379 REMARK 465 ALA B 380 REMARK 465 VAL B 381 REMARK 465 GLU B 382 REMARK 465 TRP B 383 REMARK 465 GLU B 384 REMARK 465 SER B 385 REMARK 465 ASN B 386 REMARK 465 GLY B 387 REMARK 465 GLN B 388 REMARK 465 PRO B 389 REMARK 465 GLU B 390 REMARK 465 ASN B 391 REMARK 465 ASN B 392 REMARK 465 TYR B 393 REMARK 465 LYS B 394 REMARK 465 THR B 395 REMARK 465 THR B 396 REMARK 465 PRO B 397 REMARK 465 PRO B 398 REMARK 465 VAL B 399 REMARK 465 LEU B 400 REMARK 465 ASP B 401 REMARK 465 SER B 402 REMARK 465 ASP B 403 REMARK 465 GLY B 404 REMARK 465 SER B 405 REMARK 465 PHE B 406 REMARK 465 PHE B 407 REMARK 465 LEU B 408 REMARK 465 TYR B 409 REMARK 465 SER B 410 REMARK 465 ARG B 411 REMARK 465 LEU B 412 REMARK 465 THR B 413 REMARK 465 VAL B 414 REMARK 465 ASP B 415 REMARK 465 LYS B 416 REMARK 465 SER B 417 REMARK 465 ARG B 418 REMARK 465 TRP B 419 REMARK 465 GLN B 420 REMARK 465 GLU B 421 REMARK 465 GLY B 422 REMARK 465 ASN B 423 REMARK 465 VAL B 424 REMARK 465 PHE B 425 REMARK 465 SER B 426 REMARK 465 CYS B 427 REMARK 465 SER B 428 REMARK 465 VAL B 429 REMARK 465 MET B 430 REMARK 465 HIS B 431 REMARK 465 GLU B 432 REMARK 465 ALA B 433 REMARK 465 LEU B 434 REMARK 465 HIS B 435 REMARK 465 ASN B 436 REMARK 465 HIS B 437 REMARK 465 TYR B 438 REMARK 465 THR B 439 REMARK 465 GLN B 440 REMARK 465 LYS B 441 REMARK 465 SER B 442 REMARK 465 LEU B 443 REMARK 465 SER B 444 REMARK 465 LEU B 445 REMARK 465 SER B 446 REMARK 465 LEU B 447 REMARK 465 GLY B 448 REMARK 465 GLU C 1 REMARK 465 SER C 26 REMARK 465 GLN C 27 REMARK 465 ILE C 106 REMARK 465 LYS C 107 REMARK 465 ARG C 108 REMARK 465 THR C 109 REMARK 465 VAL C 110 REMARK 465 ALA C 111 REMARK 465 ALA C 112 REMARK 465 PRO C 113 REMARK 465 SER C 114 REMARK 465 VAL C 115 REMARK 465 PHE C 116 REMARK 465 ILE C 117 REMARK 465 PHE C 118 REMARK 465 PRO C 119 REMARK 465 PRO C 120 REMARK 465 SER C 121 REMARK 465 ASP C 122 REMARK 465 GLU C 123 REMARK 465 GLN C 124 REMARK 465 LEU C 125 REMARK 465 LYS C 126 REMARK 465 SER C 127 REMARK 465 GLY C 128 REMARK 465 THR C 129 REMARK 465 ALA C 130 REMARK 465 SER C 131 REMARK 465 VAL C 132 REMARK 465 VAL C 133 REMARK 465 CYS C 134 REMARK 465 LEU C 135 REMARK 465 LEU C 136 REMARK 465 ASN C 137 REMARK 465 ASN C 138 REMARK 465 PHE C 139 REMARK 465 TYR C 140 REMARK 465 PRO C 141 REMARK 465 ARG C 142 REMARK 465 GLU C 143 REMARK 465 ALA C 144 REMARK 465 LYS C 145 REMARK 465 VAL C 146 REMARK 465 GLN C 147 REMARK 465 TRP C 148 REMARK 465 LYS C 149 REMARK 465 VAL C 150 REMARK 465 ASP C 151 REMARK 465 ASN C 152 REMARK 465 ALA C 153 REMARK 465 LEU C 154 REMARK 465 GLN C 155 REMARK 465 SER C 156 REMARK 465 GLY C 157 REMARK 465 ASN C 158 REMARK 465 SER C 159 REMARK 465 GLN C 160 REMARK 465 GLU C 161 REMARK 465 SER C 162 REMARK 465 VAL C 163 REMARK 465 THR C 164 REMARK 465 GLU C 165 REMARK 465 GLN C 166 REMARK 465 ASP C 167 REMARK 465 SER C 168 REMARK 465 LYS C 169 REMARK 465 ASP C 170 REMARK 465 SER C 171 REMARK 465 THR C 172 REMARK 465 TYR C 173 REMARK 465 SER C 174 REMARK 465 LEU C 175 REMARK 465 SER C 176 REMARK 465 SER C 177 REMARK 465 THR C 178 REMARK 465 LEU C 179 REMARK 465 THR C 180 REMARK 465 LEU C 181 REMARK 465 SER C 182 REMARK 465 LYS C 183 REMARK 465 ALA C 184 REMARK 465 ASP C 185 REMARK 465 TYR C 186 REMARK 465 GLU C 187 REMARK 465 LYS C 188 REMARK 465 HIS C 189 REMARK 465 LYS C 190 REMARK 465 VAL C 191 REMARK 465 TYR C 192 REMARK 465 ALA C 193 REMARK 465 CYS C 194 REMARK 465 GLU C 195 REMARK 465 VAL C 196 REMARK 465 THR C 197 REMARK 465 HIS C 198 REMARK 465 GLN C 199 REMARK 465 GLY C 200 REMARK 465 LEU C 201 REMARK 465 SER C 202 REMARK 465 SER C 203 REMARK 465 PRO C 204 REMARK 465 VAL C 205 REMARK 465 THR C 206 REMARK 465 LYS C 207 REMARK 465 SER C 208 REMARK 465 PHE C 209 REMARK 465 ASN C 210 REMARK 465 ARG C 211 REMARK 465 GLY C 212 REMARK 465 GLU C 213 REMARK 465 CYS C 214 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 HIS B 53 CG ND1 CD2 CE1 NE2 REMARK 470 THR B 100 OG1 CG2 REMARK 470 ARG C 18 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 24 CG CD NE CZ NH1 NH2 REMARK 470 ASP C 70 CG OD1 OD2 REMARK 470 LYS C 103 CG CD CE NZ 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 OH TYR C 36 OE1 GLN C 89 2.12 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 385 45.52 -92.18 REMARK 500 THR A 415 -169.84 -120.51 REMARK 500 ASN A 481 17.91 59.74 REMARK 500 HIS A 519 47.98 -90.47 REMARK 500 CYS A 525 -168.98 -125.00 REMARK 500 SER B 19 112.64 -160.90 REMARK 500 GLN B 39 94.95 -160.02 REMARK 500 SER B 54 -74.30 -83.88 REMARK 500 PRO B 61 11.05 -69.64 REMARK 500 ASP B 72 -7.28 72.14 REMARK 500 ASN B 99 46.38 -141.11 REMARK 500 ARG B 103 31.29 -95.97 REMARK 500 THR C 10 66.62 61.44 REMARK 500 SER C 31 -164.52 -75.55 REMARK 500 TYR C 32 67.20 63.00 REMARK 500 ASP C 50 49.42 -95.13 REMARK 500 ALA C 51 -8.23 65.97 REMARK 500 SER C 52 -36.60 -133.27 REMARK 500 ILE C 58 55.53 36.51 REMARK 500 PRO C 59 54.76 -94.08 REMARK 500 THR C 69 -7.76 73.46 REMARK 500 GLU C 81 26.14 45.08 REMARK 500 ALA C 84 -169.34 -165.63 REMARK 500 ASN C 93 -11.71 74.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE C 71 THR C 72 137.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-30950 RELATED DB: EMDB REMARK 900 SARS-COV-2 SPIKE IN COMPLEX WITH THE CA521 NEUTRALIZING ANTIBODY REMARK 900 FAB (FOCUSED REFINEMENT ON FAB-RBD) DBREF 7E23 A 333 526 UNP P0DTC2 SPIKE_SARS2 333 526 DBREF 7E23 B 1 448 PDB 7E23 7E23 1 448 DBREF 7E23 C 1 214 PDB 7E23 7E23 1 214 SEQRES 1 A 194 THR ASN LEU CYS PRO PHE GLY GLU VAL PHE ASN ALA THR SEQRES 2 A 194 ARG PHE ALA SER VAL TYR ALA TRP ASN ARG LYS ARG ILE SEQRES 3 A 194 SER ASN CYS VAL ALA ASP TYR SER VAL LEU TYR ASN SER SEQRES 4 A 194 ALA SER PHE SER THR PHE LYS CYS TYR GLY VAL SER PRO SEQRES 5 A 194 THR LYS LEU ASN ASP LEU CYS PHE THR ASN VAL TYR ALA SEQRES 6 A 194 ASP SER PHE VAL ILE ARG GLY ASP GLU VAL ARG GLN ILE SEQRES 7 A 194 ALA PRO GLY GLN THR GLY LYS ILE ALA ASP TYR ASN TYR SEQRES 8 A 194 LYS LEU PRO ASP ASP PHE THR GLY CYS VAL ILE ALA TRP SEQRES 9 A 194 ASN SER ASN ASN LEU ASP SER LYS VAL GLY GLY ASN TYR SEQRES 10 A 194 ASN TYR LEU TYR ARG LEU PHE ARG LYS SER ASN LEU LYS SEQRES 11 A 194 PRO PHE GLU ARG ASP ILE SER THR GLU ILE TYR GLN ALA SEQRES 12 A 194 GLY SER THR PRO CYS ASN GLY VAL GLU GLY PHE ASN CYS SEQRES 13 A 194 TYR PHE PRO LEU GLN SER TYR GLY PHE GLN PRO THR ASN SEQRES 14 A 194 GLY VAL GLY TYR GLN PRO TYR ARG VAL VAL VAL LEU SER SEQRES 15 A 194 PHE GLU LEU LEU HIS ALA PRO ALA THR VAL CYS GLY SEQRES 1 B 448 GLU VAL GLN LEU GLN GLN TRP GLY ALA GLY LEU LEU LYS SEQRES 2 B 448 PRO SER GLU THR LEU SER LEU THR CYS ALA VAL TYR GLY SEQRES 3 B 448 GLY SER PHE SER GLY TYR TYR TRP SER TRP ILE ARG GLN SEQRES 4 B 448 PRO PRO GLY LYS GLY LEU GLU TRP ILE GLY GLU VAL ASN SEQRES 5 B 448 HIS SER GLY SER THR ASN TYR ASN PRO SER LEU LYS SER SEQRES 6 B 448 ARG VAL THR ILE SER VAL ASP THR SER LYS ASN GLN LEU SEQRES 7 B 448 SER LEU LYS LEU ASN SER VAL THR ALA ALA ASP THR ALA SEQRES 8 B 448 VAL TYR TYR CYS ALA ARG GLY ASN THR MET VAL ARG GLY SEQRES 9 B 448 VAL ILE ILE PRO PHE GLU TYR TRP ASP LYS GLY THR LEU SEQRES 10 B 448 VAL THR VAL SER SER ALA SER THR LYS GLY PRO SER VAL SEQRES 11 B 448 PHE PRO LEU ALA PRO CYS SER ARG SER THR SER GLU SER SEQRES 12 B 448 THR ALA ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO SEQRES 13 B 448 GLU PRO VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SEQRES 14 B 448 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER SEQRES 15 B 448 GLY LEU TYR SER LEU SER SER VAL VAL THR VAL PRO SER SEQRES 16 B 448 SER SER LEU GLY THR LYS THR TYR THR CYS ASN VAL ASP SEQRES 17 B 448 HIS LYS PRO SER ASN THR LYS VAL ASP LYS ARG VAL GLU SEQRES 18 B 448 SER LYS TYR GLY PRO PRO CYS PRO PRO CYS PRO ALA PRO SEQRES 19 B 448 GLU ALA ALA GLY GLY PRO SER VAL PHE LEU PHE PRO PRO SEQRES 20 B 448 LYS PRO LYS ASP THR LEU MET ILE SER ARG THR PRO GLU SEQRES 21 B 448 VAL THR CYS VAL VAL VAL ASP VAL SER GLN GLU ASP PRO SEQRES 22 B 448 GLU VAL GLN PHE ASN TRP TYR VAL ASP GLY VAL GLU VAL SEQRES 23 B 448 HIS ASN ALA LYS THR LYS PRO ARG GLU GLU GLN PHE ASN SEQRES 24 B 448 SER THR TYR ARG VAL VAL SER VAL LEU THR VAL LEU HIS SEQRES 25 B 448 GLN ASP TRP LEU ASN GLY LYS GLU TYR LYS CYS LYS VAL SEQRES 26 B 448 SER ASN LYS GLY LEU PRO SER SER ILE GLU LYS THR ILE SEQRES 27 B 448 SER LYS ALA LYS GLY GLN PRO ARG GLU PRO GLN VAL TYR SEQRES 28 B 448 THR LEU PRO PRO SER GLN GLU GLU MET THR LYS ASN GLN SEQRES 29 B 448 VAL SER LEU THR CYS LEU VAL LYS GLY PHE TYR PRO SER SEQRES 30 B 448 ASP ILE ALA VAL GLU TRP GLU SER ASN GLY GLN PRO GLU SEQRES 31 B 448 ASN ASN TYR LYS THR THR PRO PRO VAL LEU ASP SER ASP SEQRES 32 B 448 GLY SER PHE PHE LEU TYR SER ARG LEU THR VAL ASP LYS SEQRES 33 B 448 SER ARG TRP GLN GLU GLY ASN VAL PHE SER CYS SER VAL SEQRES 34 B 448 MET HIS GLU ALA LEU HIS ASN HIS TYR THR GLN LYS SER SEQRES 35 B 448 LEU SER LEU SER LEU GLY SEQRES 1 C 214 GLU ILE VAL LEU THR GLN SER PRO ALA THR LEU SER LEU SEQRES 2 C 214 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG ALA SER SEQRES 3 C 214 GLN SER VAL SER SER TYR LEU ALA TRP TYR GLN GLN LYS SEQRES 4 C 214 PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR ASP ALA SER SEQRES 5 C 214 ASN ARG ALA THR GLY ILE PRO ALA ARG PHE SER GLY SER SEQRES 6 C 214 GLY SER GLY THR ASP PHE THR LEU THR ILE SER SER LEU SEQRES 7 C 214 GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN ARG SEQRES 8 C 214 SER ASN TRP PRO LEU THR PHE GLY GLY GLY THR LYS VAL SEQRES 9 C 214 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 C 214 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 C 214 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 C 214 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 C 214 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 C 214 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 C 214 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 C 214 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 C 214 PHE ASN ARG GLY GLU CYS HET NAG A 601 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 4 NAG C8 H15 N O6 HELIX 1 AA1 SER A 349 TRP A 353 5 5 HELIX 2 AA2 TYR A 365 ASN A 370 1 6 HELIX 3 AA3 SER A 383 LEU A 390 5 8 SHEET 1 AA1 5 ASN A 354 ILE A 358 0 SHEET 2 AA1 5 ASN A 394 ARG A 403 -1 O ALA A 397 N LYS A 356 SHEET 3 AA1 5 PRO A 507 GLU A 516 -1 O SER A 514 N TYR A 396 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 CYS A 379 -1 N THR A 376 O ALA A 435 SHEET 1 AA2 2 LEU A 452 ARG A 454 0 SHEET 2 AA2 2 LEU A 492 SER A 494 -1 O GLN A 493 N TYR A 453 SHEET 1 AA3 2 TYR A 473 GLN A 474 0 SHEET 2 AA3 2 CYS A 488 TYR A 489 -1 O TYR A 489 N TYR A 473 SHEET 1 AA4 3 SER B 19 CYS B 22 0 SHEET 2 AA4 3 SER B 74 LEU B 78 -1 O GLN B 77 N LEU B 20 SHEET 3 AA4 3 VAL B 67 ILE B 69 -1 N ILE B 69 O SER B 74 SHEET 1 AA5 4 THR B 57 ASN B 58 0 SHEET 2 AA5 4 GLU B 46 VAL B 51 -1 N GLU B 50 O ASN B 58 SHEET 3 AA5 4 TRP B 34 ARG B 38 -1 N TRP B 36 O ILE B 48 SHEET 4 AA5 4 TYR B 94 CYS B 95 -1 O TYR B 94 N ILE B 37 SHEET 1 AA6 2 ALA B 91 VAL B 92 0 SHEET 2 AA6 2 THR B 116 LEU B 117 -1 O LEU B 117 N ALA B 91 SHEET 1 AA7 2 ALA C 19 CYS C 23 0 SHEET 2 AA7 2 LEU C 73 SER C 77 -1 O SER C 77 N ALA C 19 SHEET 1 AA8 3 ARG C 45 ILE C 48 0 SHEET 2 AA8 3 ALA C 34 GLN C 38 -1 N TRP C 35 O LEU C 47 SHEET 3 AA8 3 VAL C 85 GLN C 89 -1 O VAL C 85 N GLN C 38 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 95 1555 1555 2.03 LINK ND2 ASN A 343 C1 NAG A 601 1555 1555 1.44 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