0.018325 0.000000 0.000000 0.000000 0.018325 0.000000 0.000000 0.000000 0.027894 0.00000 0.00000 0.00000 Luo, J. Obmolova, O. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 54.570 54.570 35.850 C2 H3 O2 -1 59.044 ACETATE ION non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C4 H10 O3 106.120 DI(HYDROXYETHYL)ETHER non-polymer C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking US Science SCIEAS 0038 1095-9203 362 598 602 10.1126/science.aaq0620 30385580 Universal protection against influenza infection by a multidomain antibody to influenza hemagglutinin. 2018 0000-0002-7512-2649 0000-0002-5766-8912 0000-0002-1192-4116 0000-0002-4822-7445 0000-0002-1045-7114 0000-0003-4282-4588 0000-0001-8234-201X 0000-0002-3270-1587 0000-0002-9778-1776 0000-0002-9630-3131 0000-0002-5025-3802 0000-0002-9621-3646 0000-0002-6469-2419 100 1 PIXEL 2015-07-20 DECTRIS PILATUS 6M-F SINGLE WAVELENGTH M x-ray 1 1.0 1.0 17-ID APS 1.0 SYNCHROTRON APS BEAMLINE 17-ID 12564.941 humanized antibody SD84h 1 man polymer 59.044 ACETATE ION 3 syn non-polymer 106.120 DI(HYDROXYETHYL)ETHER 4 syn non-polymer 18.015 water 122 nat water no no EVQLVESGGGLVQPGGSLRLSCAASGFTFSTSWMYWLRQAPGKGLEWVSVINTDGGTYYADSVKGRFTISRDNSKNTLYL QMNSLRAEDTAVYYCAKDWGGPEPTRGQGTLVTVSS EVQLVESGGGLVQPGGSLRLSCAASGFTFSTSWMYWLRQAPGKGLEWVSVINTDGGTYYADSVKGRFTISRDNSKNTLYL QMNSLRAEDTAVYYCAKDWGGPEPTRGQGTLVTVSS A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n sample 1 116 37965 hybrid HEK293Fexpi 9606 Homo sapiens Biological sequence 1 2.12 42.09 VAPOR DIFFUSION, SITTING DROP 4.5 2.4 M (NH4)2SO4, 0.1 M sodium acetate, 5% PEG 400 295 repository Initial release 1 0 2018-11-14 N RCSB Y RCSB 2018-03-09 REL REL ACT ACETATE ION PEG DI(HYDROXYETHYL)ETHER HOH water ACT 1 2 ACT ACT 201 A ACT 2 2 ACT ACT 202 A ACT 3 2 ACT ACT 203 A PEG 1 3 PEG PEG 204 A PEG 2 3 PEG PEG 205 A PEG 3 3 PEG PEG 206 A PEG 4 3 PEG PEG 207 A HOH 89 4 HOH HOH 301 A HOH 53 4 HOH HOH 302 A HOH 107 4 HOH HOH 303 A HOH 100 4 HOH HOH 304 A HOH 48 4 HOH HOH 305 A HOH 56 4 HOH HOH 306 A HOH 93 4 HOH HOH 307 A HOH 46 4 HOH HOH 308 A HOH 39 4 HOH HOH 309 A HOH 68 4 HOH HOH 310 A HOH 58 4 HOH HOH 311 A HOH 73 4 HOH HOH 312 A HOH 38 4 HOH HOH 313 A HOH 101 4 HOH HOH 314 A HOH 117 4 HOH HOH 315 A HOH 54 4 HOH HOH 316 A HOH 4 4 HOH HOH 317 A HOH 40 4 HOH HOH 318 A HOH 74 4 HOH HOH 319 A HOH 60 4 HOH HOH 320 A HOH 67 4 HOH HOH 321 A HOH 72 4 HOH HOH 322 A HOH 12 4 HOH HOH 323 A HOH 52 4 HOH HOH 324 A HOH 15 4 HOH HOH 325 A HOH 16 4 HOH HOH 326 A HOH 97 4 HOH HOH 327 A HOH 63 4 HOH HOH 328 A HOH 45 4 HOH HOH 329 A HOH 28 4 HOH HOH 330 A HOH 51 4 HOH HOH 331 A HOH 75 4 HOH HOH 332 A HOH 30 4 HOH HOH 333 A HOH 41 4 HOH HOH 334 A HOH 78 4 HOH HOH 335 A HOH 112 4 HOH HOH 336 A HOH 6 4 HOH HOH 337 A HOH 11 4 HOH HOH 338 A HOH 3 4 HOH HOH 339 A HOH 21 4 HOH HOH 340 A HOH 24 4 HOH HOH 341 A HOH 1 4 HOH HOH 342 A HOH 65 4 HOH HOH 343 A HOH 2 4 HOH HOH 344 A HOH 64 4 HOH HOH 345 A HOH 90 4 HOH HOH 346 A HOH 26 4 HOH HOH 347 A HOH 84 4 HOH HOH 348 A HOH 122 4 HOH HOH 349 A HOH 13 4 HOH HOH 350 A HOH 10 4 HOH HOH 351 A HOH 80 4 HOH HOH 352 A HOH 88 4 HOH HOH 353 A HOH 76 4 HOH HOH 354 A HOH 98 4 HOH HOH 355 A HOH 14 4 HOH HOH 356 A HOH 31 4 HOH HOH 357 A HOH 8 4 HOH HOH 358 A HOH 7 4 HOH HOH 359 A HOH 5 4 HOH HOH 360 A HOH 34 4 HOH HOH 361 A HOH 49 4 HOH HOH 362 A HOH 27 4 HOH HOH 363 A HOH 79 4 HOH HOH 364 A HOH 35 4 HOH HOH 365 A HOH 25 4 HOH HOH 366 A HOH 102 4 HOH HOH 367 A HOH 43 4 HOH HOH 368 A HOH 20 4 HOH HOH 369 A HOH 37 4 HOH HOH 370 A HOH 18 4 HOH HOH 371 A HOH 109 4 HOH HOH 372 A HOH 77 4 HOH HOH 373 A HOH 47 4 HOH HOH 374 A HOH 104 4 HOH HOH 375 A HOH 42 4 HOH HOH 376 A HOH 32 4 HOH HOH 377 A HOH 119 4 HOH HOH 378 A HOH 59 4 HOH HOH 379 A HOH 69 4 HOH HOH 380 A HOH 23 4 HOH HOH 381 A HOH 17 4 HOH HOH 382 A HOH 62 4 HOH HOH 383 A HOH 99 4 HOH HOH 384 A HOH 86 4 HOH HOH 385 A HOH 70 4 HOH HOH 386 A HOH 9 4 HOH HOH 387 A HOH 103 4 HOH HOH 388 A HOH 29 4 HOH HOH 389 A HOH 85 4 HOH HOH 390 A HOH 33 4 HOH HOH 391 A HOH 71 4 HOH HOH 392 A HOH 91 4 HOH HOH 393 A HOH 36 4 HOH HOH 394 A HOH 66 4 HOH HOH 395 A HOH 121 4 HOH HOH 396 A HOH 95 4 HOH HOH 397 A HOH 55 4 HOH HOH 398 A HOH 19 4 HOH HOH 399 A HOH 57 4 HOH HOH 400 A HOH 115 4 HOH HOH 401 A HOH 82 4 HOH HOH 402 A HOH 114 4 HOH HOH 403 A HOH 111 4 HOH HOH 404 A HOH 94 4 HOH HOH 405 A HOH 118 4 HOH HOH 406 A HOH 96 4 HOH HOH 407 A HOH 50 4 HOH HOH 408 A HOH 110 4 HOH HOH 409 A HOH 108 4 HOH HOH 410 A HOH 83 4 HOH HOH 411 A HOH 22 4 HOH HOH 412 A HOH 116 4 HOH HOH 413 A HOH 44 4 HOH HOH 414 A HOH 92 4 HOH HOH 415 A HOH 120 4 HOH HOH 416 A HOH 81 4 HOH HOH 417 A HOH 61 4 HOH HOH 418 A HOH 105 4 HOH HOH 419 A HOH 106 4 HOH HOH 420 A HOH 113 4 HOH HOH 421 A HOH 87 4 HOH HOH 422 A GLU 1 n 1 GLU 1 A VAL 2 n 2 VAL 2 A GLN 3 n 3 GLN 3 A LEU 4 n 4 LEU 4 A VAL 5 n 5 VAL 5 A GLU 6 n 6 GLU 6 A SER 7 n 7 SER 7 A GLY 8 n 8 GLY 8 A GLY 9 n 9 GLY 9 A GLY 10 n 10 GLY 10 A LEU 11 n 11 LEU 11 A VAL 12 n 12 VAL 12 A GLN 13 n 13 GLN 13 A PRO 14 n 14 PRO 14 A GLY 15 n 15 GLY 15 A GLY 16 n 16 GLY 16 A SER 17 n 17 SER 17 A LEU 18 n 18 LEU 18 A ARG 19 n 19 ARG 19 A LEU 20 n 20 LEU 20 A SER 21 n 21 SER 21 A CYS 22 n 22 CYS 22 A ALA 23 n 23 ALA 23 A ALA 24 n 24 ALA 24 A SER 25 n 25 SER 25 A GLY 26 n 26 GLY 26 A PHE 27 n 27 PHE 27 A THR 28 n 28 THR 28 A PHE 29 n 29 PHE 29 A SER 30 n 30 SER 30 A THR 31 n 31 THR 31 A SER 32 n 32 SER 32 A TRP 33 n 33 TRP 33 A MET 34 n 34 MET 34 A TYR 35 n 35 TYR 35 A TRP 36 n 36 TRP 36 A LEU 37 n 37 LEU 37 A ARG 38 n 38 ARG 38 A GLN 39 n 39 GLN 39 A ALA 40 n 40 ALA 40 A PRO 41 n 41 PRO 41 A GLY 42 n 42 GLY 42 A LYS 43 n 43 LYS 43 A GLY 44 n 44 GLY 44 A LEU 45 n 45 LEU 45 A GLU 46 n 46 GLU 46 A TRP 47 n 47 TRP 47 A VAL 48 n 48 VAL 48 A SER 49 n 49 SER 49 A VAL 50 n 50 VAL 50 A ILE 51 n 51 ILE 51 A ASN 52 n 52 ASN 52 A THR 53 n 53 THR 53 A ASP 54 n 54 ASP 54 A GLY 55 n 55 GLY 55 A GLY 56 n 56 GLY 56 A THR 57 n 57 THR 57 A TYR 58 n 58 TYR 58 A TYR 59 n 59 TYR 59 A ALA 60 n 60 ALA 60 A ASP 61 n 61 ASP 61 A SER 62 n 62 SER 62 A VAL 63 n 63 VAL 63 A LYS 64 n 64 LYS 64 A GLY 65 n 65 GLY 65 A ARG 66 n 66 ARG 66 A PHE 67 n 67 PHE 67 A THR 68 n 68 THR 68 A ILE 69 n 69 ILE 69 A SER 70 n 70 SER 70 A ARG 71 n 71 ARG 71 A ASP 72 n 72 ASP 72 A ASN 73 n 73 ASN 73 A SER 74 n 74 SER 74 A LYS 75 n 75 LYS 75 A ASN 76 n 76 ASN 76 A THR 77 n 77 THR 77 A LEU 78 n 78 LEU 78 A TYR 79 n 79 TYR 79 A LEU 80 n 80 LEU 80 A GLN 81 n 81 GLN 81 A MET 82 n 82 MET 82 A ASN 83 n 83 ASN 83 A SER 84 n 84 SER 84 A LEU 85 n 85 LEU 85 A ARG 86 n 86 ARG 86 A ALA 87 n 87 ALA 87 A GLU 88 n 88 GLU 88 A ASP 89 n 89 ASP 89 A THR 90 n 90 THR 90 A ALA 91 n 91 ALA 91 A VAL 92 n 92 VAL 92 A TYR 93 n 93 TYR 93 A TYR 94 n 94 TYR 94 A CYS 95 n 95 CYS 95 A ALA 96 n 96 ALA 96 A LYS 97 n 97 LYS 97 A ASP 98 n 98 ASP 98 A TRP 99 n 99 TRP 99 A GLY 100 n 100 GLY 100 A GLY 101 n 101 GLY 101 A PRO 102 n 102 PRO 102 A GLU 103 n 103 GLU 103 A PRO 104 n 104 PRO 104 A THR 105 n 105 THR 105 A ARG 106 n 106 ARG 106 A GLY 107 n 107 GLY 107 A GLN 108 n 108 GLN 108 A GLY 109 n 109 GLY 109 A THR 110 n 110 THR 110 A LEU 111 n 111 LEU 111 A VAL 112 n 112 VAL 112 A THR 113 n 113 THR 113 A VAL 114 n 114 VAL 114 A SER 115 n 115 SER 115 A SER 116 n 116 SER 116 A author_defined_assembly 1 monomeric gel filtration 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N GLN 3 A N GLN 3 A O SER 25 A O SER 25 A N LEU 18 A N LEU 18 A O MET 82 A O MET 82 A O TYR 79 A O TYR 79 A N SER 70 A N SER 70 A N VAL 12 A N VAL 12 A O THR 113 A O THR 113 A O THR 110 A O THR 110 A N TYR 93 A N TYR 93 A O TYR 94 A O TYR 94 A N LEU 37 A N LEU 37 A N TRP 36 A N TRP 36 A O VAL 48 A O VAL 48 A N VAL 50 A N VAL 50 A O TYR 58 A O TYR 58 A N VAL 12 A N VAL 12 A O THR 113 A O THR 113 A O THR 110 A O THR 110 A N TYR 93 A N TYR 93 A N LYS 97 A N LYS 97 A O THR 105 A O THR 105 1 A C1 PEG 207 H C1 PEG 1 1 N 1 A O1 PEG 207 H O1 PEG 1 1 N 1 A A O O HOH HOH 312 363 1.98 1 A A O O HOH HOH 304 313 2.12 1 A A O O HOH HOH 409 410 1.99 1_555 2_545 0.1394 0.1257 0.1263 0.920 24.404 3179 63552 5.00 86.91 0.04 1 FREE R-VALUE 1.37 MOLECULAR REPLACEMENT 12.26 0.90 1.11 0.920 24.404 122 1043 38 0 883 0.006 966 1.009 1304 22.263 347 0.088 138 0.006 166 0.1944 0.2873 0.9338 27 502 17.00 0.2233 0.2374 0.9484 47 891 30.00 0.2266 0.2039 0.9640 67 1271 42.00 0.1960 0.1759 0.9806 88 1672 56.00 0.1545 0.1501 0.9984 110 2088 70.00 0.1503 0.1298 1.0176 145 2763 91.00 0.1137 0.1171 1.0384 157 2982 100.00 0.1238 0.1065 1.0610 160 3023 100.00 0.1267 0.0998 1.0856 158 3016 100.00 0.1166 0.0936 1.1128 158 3005 100.00 0.1146 0.0919 1.1429 158 2986 100.00 0.1052 0.0936 1.1765 157 2990 100.00 0.1083 0.0968 1.2145 159 3030 100.00 0.1117 0.0974 1.2579 158 3001 100.00 0.0972 0.1032 1.3082 158 3004 99.00 0.1257 0.1122 1.3678 160 3025 100.00 0.1363 0.1138 1.4399 158 2999 100.00 0.1351 0.1132 1.5301 157 2984 99.00 0.1410 0.1215 1.6482 159 3029 99.00 0.1338 0.1294 1.8140 158 2993 99.00 0.1301 0.1278 2.0764 157 2997 99.00 0.1419 0.1334 2.6156 160 3026 99.00 0.1732 0.1479 24.4130 163 3096 99.00 0.92 26.27 6CNW 63610 1.00 1 20.39 5.76 86.2 0.92 0.97 2.17 3146 0.78 1 2.46 29.3 refinement PHENIX (1.10_2155: ???) data reduction XDS data scaling XSCALE phasing PHASER N SD84h STRUCTURE OF HUMANIZED SINGLE DOMAIN ANTIBODY SD84 1 N N 2 N N 2 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N A THR 28 A THR 28 HELX_P A SER 32 A SER 32 5 AA1 5 A ASP 61 A ASP 61 HELX_P A LYS 64 A LYS 64 5 AA2 4 A ASN 73 A ASN 73 HELX_P A LYS 75 A LYS 75 5 AA3 3 A ARG 86 A ARG 86 HELX_P A THR 90 A THR 90 5 AA4 5 disulf 2.057 A A A CYS 22 A SG CYS 22 1_555 A CYS 95 A SG CYS 95 1_555 disulf 2.052 B B A CYS 22 A SG CYS 22 1_555 A CYS 95 A SG CYS 95 1_555 IMMUNE SYSTEM single domain antibody, humanization, influenza, hemagglutinin, IMMUNE SYSTEM A GLY 101 A GLY 101 1 A PRO 102 A PRO 102 -0.30 6CNW PDB 1 1 6CNW 1 116 6CNW 1 116 6CNW A 1 1 116 4 6 4 anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel A GLN 3 A GLN 3 A SER 7 A SER 7 A LEU 18 A LEU 18 A SER 25 A SER 25 A THR 77 A THR 77 A MET 82 A MET 82 A PHE 67 A PHE 67 A ASP 72 A ASP 72 A LEU 11 A LEU 11 A VAL 12 A VAL 12 A THR 110 A THR 110 A VAL 114 A VAL 114 A ALA 91 A ALA 91 A LYS 97 A LYS 97 A MET 34 A MET 34 A GLN 39 A GLN 39 A LEU 45 A LEU 45 A ILE 51 A ILE 51 A THR 57 A THR 57 A TYR 59 A TYR 59 A LEU 11 A LEU 11 A VAL 12 A VAL 12 A THR 110 A THR 110 A VAL 114 A VAL 114 A ALA 91 A ALA 91 A LYS 97 A LYS 97 A THR 105 A THR 105 A ARG 106 A ARG 106 binding site for residue ACT A 201 A ACT 201 Software 3 binding site for residue ACT A 202 A ACT 202 Software 5 binding site for residue ACT A 203 A ACT 203 Software 6 binding site for residue PEG A 204 A PEG 204 Software 8 binding site for residue PEG A 205 A PEG 205 Software 5 binding site for residue PEG A 206 A PEG 206 Software 4 binding site for residue PEG A 207 A PEG 207 Software 3 A PHE 27 A PHE 27 3 1_555 A THR 28 A THR 28 3 1_555 A HOH 347 I HOH 3 1_555 A THR 57 A THR 57 5 1_555 A TYR 59 A TYR 59 5 1_555 A HOH 325 I HOH 5 1_555 A HOH 329 I HOH 5 1_555 A HOH 359 I HOH 5 1_555 A ASP 72 A ASP 72 6 1_555 A ASN 73 A ASN 73 6 1_555 A SER 74 A SER 74 6 1_555 A PEG 204 E PEG 6 3_545 A HOH 303 I HOH 6 1_555 A HOH 399 I HOH 6 1_555 A ASN 52 A ASN 52 8 1_555 A GLY 56 A GLY 56 8 1_555 A THR 57 A THR 57 8 1_555 A ACT 203 D ACT 8 4_654 A PEG 207 H PEG 8 1_555 A HOH 302 I HOH 8 1_555 A HOH 315 I HOH 8 1_555 A HOH 396 I HOH 8 1_555 A ASN 83 A ASN 83 5 4_554 A SER 115 A SER 115 5 1_555 A SER 116 A SER 116 5 1_555 A HOH 332 I HOH 5 1_555 A HOH 388 I HOH 5 1_555 A THR 31 A THR 31 4 4_654 A VAL 50 A VAL 50 4 1_555 A TYR 58 A TYR 58 4 1_555 A HOH 306 I HOH 4 1_555 A THR 53 A THR 53 3 4_654 A PEG 204 E PEG 3 1_555 A HOH 349 I HOH 3 1_555 76 P 41