0.018711 0.000000 0.000000 0.000000 0.009113 0.000000 0.000000 0.000000 0.007652 0.00000 0.00000 0.00000 Kwon, Y.D. Kwong, P.D. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 53.445 109.738 130.682 C17 H24 Br N3 O2 382.295 N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide NBD-557 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 C6 H10 N3 O2 1 156.162 y HISTIDINE L-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 C8 H15 N O6 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE D-saccharide, beta linking 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 Y 1 N C Y 2 N C Y 3 N C Y 4 N C N 5 N N N 6 N C N 7 N O N 8 N C N 9 N O N 10 N N N 11 N C N 12 N C N 13 N C N 14 N C N 15 N C N 16 N N N 17 N C N 18 N C N 19 N C N 20 N C Y 21 N C Y 22 N C N 23 N BR N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H N 44 N H N 45 N H N 46 N H N 47 N H N 48 N N N 49 S C N 50 N C N 51 N O N 52 N C N 53 N O N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N N N 62 S C N 63 N C N 64 N O N 65 N C N 66 N C N 67 N C N 68 N N N 69 N C N 70 N N N 71 N N N 72 N O N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N N N 89 S C N 90 N C N 91 N O N 92 N C N 93 N C N 94 N O N 95 N N N 96 N O N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N N N 106 S C N 107 N C N 108 N O N 109 N C N 110 N C N 111 N O N 112 N O N 113 N O N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N H N 120 N H N 121 N N N 122 R C N 123 N C N 124 N O N 125 N C N 126 N S N 127 N O N 128 N H N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N N N 136 S C N 137 N C N 138 N O N 139 N C N 140 N C N 141 N C N 142 N O N 143 N N N 144 N O N 145 N H N 146 N H N 147 N H N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N N N 156 S C N 157 N C N 158 N O N 159 N C N 160 N C N 161 N C N 162 N O N 163 N O N 164 N O N 165 N H N 166 N H N 167 N H N 168 N H N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N N N 175 N C N 176 N C N 177 N O N 178 N O N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N N N 185 S C N 186 N C N 187 N O N 188 N C Y 189 N C Y 190 N N Y 191 N C Y 192 N C Y 193 N N N 194 N O N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N O N 206 N H N 207 N H N 208 N N N 209 S C N 210 N C N 211 N O N 212 S C N 213 N C N 214 N C N 215 N C N 216 N O N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N N N 231 S C N 232 N C N 233 N O N 234 N C N 235 N C N 236 N C N 237 N C N 238 N O N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N N N 253 S C N 254 N C N 255 N O N 256 N C N 257 N C N 258 N C N 259 N C N 260 N N N 261 N O N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N N N 278 S C N 279 N C N 280 N O N 281 N C N 282 N C N 283 N S N 284 N C N 285 N O N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 R C N 298 R C N 299 R C N 300 S C N 301 R C N 302 N C N 303 N C N 304 N C N 305 N N N 306 N O N 307 N O N 308 N O N 309 N O N 310 N O N 311 N O N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N N N 328 S C N 329 N C N 330 N O N 331 N C Y 332 N C Y 333 N C Y 334 N C Y 335 N C Y 336 N C Y 337 N C N 338 N O N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N H N 350 N N N 351 S C N 352 N C N 353 N O N 354 N C N 355 N C N 356 N C N 357 N O N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N H N 364 N H N 365 N H N 366 N H N 367 N N N 368 S C N 369 N C N 370 N O N 371 N C N 372 N O N 373 N O N 374 N H N 375 N H N 376 N H N 377 N H N 378 N H N 379 N H N 380 N H N 381 N N N 382 S C N 383 N C N 384 N O N 385 R C N 386 N O N 387 N C N 388 N O N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N H N 395 N H N 396 N H N 397 N H N 398 N N N 399 S C N 400 N C N 401 N O N 402 N C Y 403 N C Y 404 N C Y 405 N C Y 406 N N Y 407 N C Y 408 N C Y 409 N C Y 410 N C Y 411 N C N 412 N O N 413 N H N 414 N H N 415 N H N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 N H N 425 N N N 426 S C N 427 N C N 428 N O N 429 N C Y 430 N C Y 431 N C Y 432 N C Y 433 N C Y 434 N C Y 435 N C N 436 N O N 437 N O N 438 N H N 439 N H N 440 N H N 441 N H N 442 N H N 443 N H N 444 N H N 445 N H N 446 N H N 447 N H N 448 N H N 449 N N N 450 S C N 451 N C N 452 N O N 453 N C N 454 N C N 455 N C N 456 N O N 457 N H N 458 N H N 459 N H N 460 N H N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N doub N 13 N sing N 14 N sing N 15 N sing N 16 N doub N 17 N sing Y 18 N doub Y 19 N sing Y 20 N sing Y 21 N doub Y 22 N doub Y 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N doub N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N doub N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N doub N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N doub N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N doub N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N doub N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N doub N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N doub N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N doub N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N doub N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N doub N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N doub N 184 N sing N 185 N sing N 186 N sing N 187 N sing Y 188 N sing Y 189 N doub Y 190 N doub N 191 N sing Y 192 N sing N 193 N sing Y 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N doub N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N doub N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N doub N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N doub N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N doub N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N doub N 322 N sing N 323 N sing N 324 N sing N 325 N sing Y 326 N doub Y 327 N sing Y 328 N sing N 329 N sing Y 330 N doub N 331 N sing Y 332 N doub N 333 N sing Y 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N doub N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N doub N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N doub N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N doub N 391 N sing N 392 N sing N 393 N sing N 394 N sing Y 395 N doub Y 396 N sing Y 397 N sing N 398 N sing Y 399 N doub Y 400 N sing Y 401 N sing N 402 N sing Y 403 N sing Y 404 N doub N 405 N sing Y 406 N doub N 407 N sing Y 408 N sing N 409 N sing N 410 N sing N 411 N sing N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N doub N 419 N sing N 420 N sing N 421 N sing N 422 N sing Y 423 N doub Y 424 N sing Y 425 N sing N 426 N sing Y 427 N doub N 428 N sing Y 429 N doub N 430 N sing Y 431 N sing N 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N doub N 443 N sing N 444 N sing N 445 N sing N 446 N sing N 447 N sing N 448 N sing N 449 N sing N 450 N sing N 451 N sing N 452 N sing N 453 N sing US Plos One 1932-6203 9 e85940 e85940 10.1371/journal.pone.0085940 24489681 Crystal Structures of HIV-1 gp120 Envelope Glycoprotein in Complex with NBD Analogues That Target the CD4-Binding Site. 2014 10.2210/pdb4dvr/pdb pdb_00004dvr 100 1 IMAGE PLATE 2008-06-12 MAR scanner 300 mm plate SINGLE WAVELENGTH M x-ray 1 1 1.0 22-ID APS 1 SYNCHROTRON APS BEAMLINE 22-ID 34918.633 Envelope glycoprotein gp120 unp residues 82-122; 199-297; 319-479 1 man polymer 23092.562 Fab 48d Light chain 1 man polymer 23386.137 Fab 48d Heavy chain 1 man polymer 221.208 2-acetamido-2-deoxy-beta-D-glucopyranose 7 man non-polymer 382.295 N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide 1 syn non-polymer 18.015 water 113 nat water Env polyprotein,Env polyprotein,Env polyprotein no no EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNG TGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGGSGSGGDIRQAHC NLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCR IKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNG TGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGGSGSGGDIRQAHC NLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCR IKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE G polypeptide(L) no no DIQMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFSLTINSLQP EDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQE SVTEQDSKDSTYSLSSTLTLSKADYEKHKLYACEVTHQGLSSPVTKSFNRGE DIQMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFSLTINSLQP EDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQE SVTEQDSKDSTYSLSSTLTLSKADYEKHKLYACEVTHQGLSSPVTKSFNRGE L polypeptide(L) no no EVQLVQSGAEVKKPGATVKISCKASGYTFSDFYMYWVRQAPGKGLEWMGLIDPEDADTMYAEKFRGRVTITADTSTDTGY LELSSLRSEDTAVYYCAADPWELNAFNVWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP EVQLVQSGAEVKKPGATVKISCKASGYTFSDFYMYWVRQAPGKGLEWMGLIDPEDADTMYAEKFRGRVTITADTSTDTGY LELSSLRSEDTAVYYCAADPWELNAFNVWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP H 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 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 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 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 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 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 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 HIV-1 isolate YU-2 human sample 1 43 env 362651 Human immunodeficiency virus type 1 group M subtype B (isolate YU-2) HEK293F 9606 Homo sapiens plasmid Biological sequence pVRC8400 HIV-1 isolate YU-2 human sample 44 146 env 362651 Human immunodeficiency virus type 1 group M subtype B (isolate YU-2) HEK293F 9606 Homo sapiens plasmid Biological sequence pVRC8400 HIV-1 isolate YU-2 human sample 153 313 env 362651 Human immunodeficiency virus type 1 group M subtype B (isolate YU-2) HEK293F 9606 Homo sapiens plasmid Biological sequence pVRC8400 human human sample 1 212 9606 Homo sapiens 9606 Homo sapiens Biological sequence human human sample 1 219 9606 Homo sapiens 9606 Homo sapiens Biological sequence 1 2.35 47.75 VAPOR DIFFUSION, HANGING DROP 8.5 20% PEG3350, 5% iso-propanol, 0.1M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 chem_comp entity pdbx_chem_comp_identifier pdbx_entity_nonpoly struct_conn struct_site struct_site_gen chem_comp entity_src_gen chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_unobs_or_zero_occ_atoms repository Initial release Carbohydrate remediation repository Remediation Database references Non-polymer description Structure summary Data collection Derived calculations Structure summary Source and taxonomy Structure summary Advisory Data collection Database references Refinement description 1 0 2013-02-27 1 1 2014-03-19 1 2 2014-12-17 1 3 2017-05-31 1 4 2020-07-29 1 5 2021-05-19 1 6 2023-09-13 _chem_comp.name _chem_comp.type _entity.pdbx_description _pdbx_entity_nonpoly.name _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_role _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _chem_comp.pdbx_synonyms _entity_src_gen.gene_src_common_name _entity_src_gen.host_org_common_name _entity_src_gen.pdbx_host_org_cell_line _entity_src_gen.pdbx_host_org_strain _database_2.pdbx_DOI _database_2.pdbx_database_accession DGlcpNAcb N-acetyl-b-D-glucopyranosamine b-D-GlcpNAc GlcNAc RCSB Y RCSB 2012-02-23 REL REL NAG 2-acetamido-2-deoxy-beta-D-glucopyranose 0LY N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide HOH water THE CRYSTALLIZED SEQUENCE WAS CONSTRUCTED BY DELETION OF N-TERMINAL 1-43, BY REPLACING THE V1/V2 REGIONS WITH A GG LINKER, AND REPLACING V3 REGION WITH A LINKER GGSGSG 1RZK pdb entry 1RZK PDB experimental model NAG 734 4 NAG NAG 501 G NAG 762 4 NAG NAG 502 G NAG 776 4 NAG NAG 503 G NAG 789 4 NAG NAG 504 G NAG 795 4 NAG NAG 505 G NAG 886 4 NAG NAG 506 G NAG 948 4 NAG NAG 507 G 0LY 1 5 0LY 0LY 508 G HOH 2 6 HOH HOH 601 G HOH 3 6 HOH HOH 602 G HOH 4 6 HOH HOH 603 G HOH 7 6 HOH HOH 604 G HOH 8 6 HOH HOH 605 G HOH 13 6 HOH HOH 606 G HOH 16 6 HOH HOH 607 G HOH 17 6 HOH HOH 608 G HOH 20 6 HOH HOH 609 G HOH 24 6 HOH HOH 610 G HOH 27 6 HOH HOH 611 G HOH 28 6 HOH HOH 612 G HOH 31 6 HOH HOH 613 G HOH 32 6 HOH HOH 614 G HOH 35 6 HOH HOH 615 G HOH 38 6 HOH HOH 616 G HOH 39 6 HOH HOH 617 G HOH 40 6 HOH HOH 618 G HOH 41 6 HOH HOH 619 G HOH 45 6 HOH HOH 620 G HOH 49 6 HOH HOH 621 G HOH 50 6 HOH HOH 622 G HOH 52 6 HOH HOH 623 G HOH 53 6 HOH HOH 624 G HOH 57 6 HOH HOH 625 G HOH 60 6 HOH HOH 626 G HOH 63 6 HOH HOH 627 G HOH 66 6 HOH HOH 628 G HOH 68 6 HOH HOH 629 G HOH 70 6 HOH HOH 630 G HOH 71 6 HOH HOH 631 G HOH 74 6 HOH HOH 632 G HOH 78 6 HOH HOH 633 G HOH 79 6 HOH HOH 634 G HOH 80 6 HOH HOH 635 G HOH 82 6 HOH HOH 636 G HOH 84 6 HOH HOH 637 G HOH 86 6 HOH HOH 638 G HOH 90 6 HOH HOH 639 G HOH 91 6 HOH HOH 640 G HOH 92 6 HOH HOH 641 G HOH 93 6 HOH HOH 642 G HOH 95 6 HOH HOH 643 G HOH 96 6 HOH HOH 644 G HOH 97 6 HOH HOH 645 G HOH 100 6 HOH HOH 646 G HOH 102 6 HOH HOH 647 G HOH 103 6 HOH HOH 648 G HOH 105 6 HOH HOH 649 G HOH 112 6 HOH HOH 650 G HOH 1 6 HOH HOH 301 L HOH 9 6 HOH HOH 302 L HOH 10 6 HOH HOH 303 L HOH 11 6 HOH HOH 304 L HOH 15 6 HOH HOH 305 L HOH 18 6 HOH HOH 306 L HOH 21 6 HOH HOH 307 L HOH 25 6 HOH HOH 308 L HOH 26 6 HOH HOH 309 L HOH 34 6 HOH HOH 310 L HOH 36 6 HOH HOH 311 L HOH 47 6 HOH HOH 312 L HOH 54 6 HOH HOH 313 L HOH 55 6 HOH HOH 314 L HOH 56 6 HOH HOH 315 L HOH 58 6 HOH HOH 316 L HOH 59 6 HOH HOH 317 L HOH 62 6 HOH HOH 318 L HOH 65 6 HOH HOH 319 L HOH 72 6 HOH HOH 320 L HOH 75 6 HOH HOH 321 L HOH 76 6 HOH HOH 322 L HOH 77 6 HOH HOH 323 L HOH 81 6 HOH HOH 324 L HOH 83 6 HOH HOH 325 L HOH 88 6 HOH HOH 326 L HOH 106 6 HOH HOH 327 L HOH 108 6 HOH HOH 328 L HOH 110 6 HOH HOH 329 L HOH 5 6 HOH HOH 301 H HOH 6 6 HOH HOH 302 H HOH 12 6 HOH HOH 303 H HOH 14 6 HOH HOH 304 H HOH 19 6 HOH HOH 305 H HOH 22 6 HOH HOH 306 H HOH 23 6 HOH HOH 307 H HOH 29 6 HOH HOH 308 H HOH 30 6 HOH HOH 309 H HOH 33 6 HOH HOH 310 H HOH 37 6 HOH HOH 311 H HOH 42 6 HOH HOH 312 H HOH 43 6 HOH HOH 313 H HOH 44 6 HOH HOH 314 H HOH 46 6 HOH HOH 315 H HOH 48 6 HOH HOH 316 H HOH 51 6 HOH HOH 317 H HOH 61 6 HOH HOH 318 H HOH 64 6 HOH HOH 319 H HOH 67 6 HOH HOH 320 H HOH 69 6 HOH HOH 321 H HOH 73 6 HOH HOH 322 H HOH 85 6 HOH HOH 323 H HOH 87 6 HOH HOH 324 H HOH 89 6 HOH HOH 325 H HOH 94 6 HOH HOH 326 H HOH 98 6 HOH HOH 327 H HOH 99 6 HOH HOH 328 H HOH 101 6 HOH HOH 329 H HOH 104 6 HOH HOH 330 H HOH 107 6 HOH HOH 331 H HOH 109 6 HOH HOH 332 H HOH 111 6 HOH HOH 333 H HOH 113 6 HOH HOH 334 H n 1 83 G n 2 84 G n 3 85 G n 4 86 G n 5 87 G n 6 88 G n 7 89 G THR 90 n 8 THR 90 G GLU 91 n 9 GLU 91 G ASN 92 n 10 ASN 92 G PHE 93 n 11 PHE 93 G ASN 94 n 12 ASN 94 G MET 95 n 13 MET 95 G TRP 96 n 14 TRP 96 G LYS 97 n 15 LYS 97 G ASN 98 n 16 ASN 98 G ASN 99 n 17 ASN 99 G MET 100 n 18 MET 100 G VAL 101 n 19 VAL 101 G GLU 102 n 20 GLU 102 G GLN 103 n 21 GLN 103 G MET 104 n 22 MET 104 G HIS 105 n 23 HIS 105 G GLU 106 n 24 GLU 106 G ASP 107 n 25 ASP 107 G ILE 108 n 26 ILE 108 G ILE 109 n 27 ILE 109 G SER 110 n 28 SER 110 G LEU 111 n 29 LEU 111 G TRP 112 n 30 TRP 112 G ASP 113 n 31 ASP 113 G GLN 114 n 32 GLN 114 G SER 115 n 33 SER 115 G LEU 116 n 34 LEU 116 G LYS 117 n 35 LYS 117 G PRO 118 n 36 PRO 118 G CYS 119 n 37 CYS 119 G VAL 120 n 38 VAL 120 G LYS 121 n 39 LYS 121 G LEU 122 n 40 LEU 122 G THR 123 n 41 THR 123 G GLY 124 n 42 GLY 124 G GLY 198 n 43 GLY 198 G SER 199 n 44 SER 199 G VAL 200 n 45 VAL 200 G ILE 201 n 46 ILE 201 G THR 202 n 47 THR 202 G GLN 203 n 48 GLN 203 G ALA 204 n 49 ALA 204 G CYS 205 n 50 CYS 205 G PRO 206 n 51 PRO 206 G LYS 207 n 52 LYS 207 G VAL 208 n 53 VAL 208 G SER 209 n 54 SER 209 G PHE 210 n 55 PHE 210 G GLU 211 n 56 GLU 211 G PRO 212 n 57 PRO 212 G ILE 213 n 58 ILE 213 G PRO 214 n 59 PRO 214 G ILE 215 n 60 ILE 215 G HIS 216 n 61 HIS 216 G TYR 217 n 62 TYR 217 G CYS 218 n 63 CYS 218 G ALA 219 n 64 ALA 219 G PRO 220 n 65 PRO 220 G ALA 221 n 66 ALA 221 G GLY 222 n 67 GLY 222 G PHE 223 n 68 PHE 223 G ALA 224 n 69 ALA 224 G ILE 225 n 70 ILE 225 G LEU 226 n 71 LEU 226 G LYS 227 n 72 LYS 227 G CYS 228 n 73 CYS 228 G ASN 229 n 74 ASN 229 G ASP 230 n 75 ASP 230 G LYS 231 n 76 LYS 231 G LYS 232 n 77 LYS 232 G PHE 233 n 78 PHE 233 G ASN 234 n 79 ASN 234 G GLY 235 n 80 GLY 235 G THR 236 n 81 THR 236 G GLY 237 n 82 GLY 237 G PRO 238 n 83 PRO 238 G CYS 239 n 84 CYS 239 G THR 240 n 85 THR 240 G ASN 241 n 86 ASN 241 G VAL 242 n 87 VAL 242 G SER 243 n 88 SER 243 G THR 244 n 89 THR 244 G VAL 245 n 90 VAL 245 G GLN 246 n 91 GLN 246 G CYS 247 n 92 CYS 247 G THR 248 n 93 THR 248 G HIS 249 n 94 HIS 249 G GLY 250 n 95 GLY 250 G ILE 251 n 96 ILE 251 G ARG 252 n 97 ARG 252 G PRO 253 n 98 PRO 253 G VAL 254 n 99 VAL 254 G VAL 255 n 100 VAL 255 G SER 256 n 101 SER 256 G THR 257 n 102 THR 257 G GLN 258 n 103 GLN 258 G LEU 259 n 104 LEU 259 G LEU 260 n 105 LEU 260 G LEU 261 n 106 LEU 261 G ASN 262 n 107 ASN 262 G GLY 263 n 108 GLY 263 G SER 264 n 109 SER 264 G LEU 265 n 110 LEU 265 G ALA 266 n 111 ALA 266 G GLU 267 n 112 GLU 267 G GLU 268 n 113 GLU 268 G GLU 269 n 114 GLU 269 G ILE 270 n 115 ILE 270 G VAL 271 n 116 VAL 271 G ILE 272 n 117 ILE 272 G ARG 273 n 118 ARG 273 G SER 274 n 119 SER 274 G GLU 275 n 120 GLU 275 G ASN 276 n 121 ASN 276 G PHE 277 n 122 PHE 277 G THR 278 n 123 THR 278 G ASN 279 n 124 ASN 279 G ASN 280 n 125 ASN 280 G ALA 281 n 126 ALA 281 G LYS 282 n 127 LYS 282 G THR 283 n 128 THR 283 G ILE 284 n 129 ILE 284 G ILE 285 n 130 ILE 285 G VAL 286 n 131 VAL 286 G GLN 287 n 132 GLN 287 G LEU 288 n 133 LEU 288 G ASN 289 n 134 ASN 289 G GLU 290 n 135 GLU 290 G SER 291 n 136 SER 291 G VAL 292 n 137 VAL 292 G VAL 293 n 138 VAL 293 G ILE 294 n 139 ILE 294 G ASN 295 n 140 ASN 295 G CYS 296 n 141 CYS 296 G THR 297 n 142 THR 297 G ARG 298 n 143 ARG 298 G PRO 299 n 144 PRO 299 G ASN 300 n 145 ASN 300 G ASN 301 n 146 ASN 301 G n 147 318 G n 148 319 G n 149 320 G n 150 321 G n 151 322 G n 152 323 G GLY 324 n 153 GLY 324 G ASP 325 n 154 ASP 325 G ILE 326 n 155 ILE 326 G ARG 327 n 156 ARG 327 G GLN 328 n 157 GLN 328 G ALA 329 n 158 ALA 329 G HIS 330 n 159 HIS 330 G CYS 331 n 160 CYS 331 G ASN 332 n 161 ASN 332 G LEU 333 n 162 LEU 333 G SER 334 n 163 SER 334 G LYS 335 n 164 LYS 335 G THR 336 n 165 THR 336 G GLN 337 n 166 GLN 337 G TRP 338 n 167 TRP 338 G GLU 339 n 168 GLU 339 G ASN 340 n 169 ASN 340 G THR 341 n 170 THR 341 G LEU 342 n 171 LEU 342 G GLU 343 n 172 GLU 343 G GLN 344 n 173 GLN 344 G ILE 345 n 174 ILE 345 G ALA 346 n 175 ALA 346 G ILE 347 n 176 ILE 347 G LYS 348 n 177 LYS 348 G LEU 349 n 178 LEU 349 G LYS 350 n 179 LYS 350 G GLU 351 n 180 GLU 351 G GLN 352 n 181 GLN 352 G PHE 353 n 182 PHE 353 G GLY 354 n 183 GLY 354 G ASN 355 n 184 ASN 355 G ASN 356 n 185 ASN 356 G LYS 357 n 186 LYS 357 G THR 358 n 187 THR 358 G ILE 359 n 188 ILE 359 G ILE 360 n 189 ILE 360 G PHE 361 n 190 PHE 361 G ASN 362 n 191 ASN 362 G PRO 363 n 192 PRO 363 G SER 364 n 193 SER 364 G SER 365 n 194 SER 365 G GLY 366 n 195 GLY 366 G GLY 367 n 196 GLY 367 G ASP 368 n 197 ASP 368 G PRO 369 n 198 PRO 369 G GLU 370 n 199 GLU 370 G ILE 371 n 200 ILE 371 G VAL 372 n 201 VAL 372 G THR 373 n 202 THR 373 G HIS 374 n 203 HIS 374 G SER 375 n 204 SER 375 G PHE 376 n 205 PHE 376 G ASN 377 n 206 ASN 377 G CYS 378 n 207 CYS 378 G GLY 379 n 208 GLY 379 G GLY 380 n 209 GLY 380 G GLU 381 n 210 GLU 381 G PHE 382 n 211 PHE 382 G PHE 383 n 212 PHE 383 G TYR 384 n 213 TYR 384 G CYS 385 n 214 CYS 385 G ASN 386 n 215 ASN 386 G SER 387 n 216 SER 387 G THR 388 n 217 THR 388 G GLN 389 n 218 GLN 389 G LEU 390 n 219 LEU 390 G PHE 391 n 220 PHE 391 G THR 392 n 221 THR 392 G TRP 393 n 222 TRP 393 G ASN 394 n 223 ASN 394 G ASP 395 n 224 ASP 395 G THR 396 n 225 THR 396 G n 226 405 G n 227 406 G n 228 407 G n 229 408 G n 230 409 G n 231 410 G n 232 411 G ARG 412 n 233 ARG 412 G ASN 413 n 234 ASN 413 G ILE 414 n 235 ILE 414 G THR 415 n 236 THR 415 G LEU 416 n 237 LEU 416 G PRO 417 n 238 PRO 417 G CYS 418 n 239 CYS 418 G ARG 419 n 240 ARG 419 G ILE 420 n 241 ILE 420 G LYS 421 n 242 LYS 421 G GLN 422 n 243 GLN 422 G ILE 423 n 244 ILE 423 G ILE 424 n 245 ILE 424 G ASN 425 n 246 ASN 425 G MET 426 n 247 MET 426 G TRP 427 n 248 TRP 427 G GLN 428 n 249 GLN 428 G GLU 429 n 250 GLU 429 G VAL 430 n 251 VAL 430 G GLY 431 n 252 GLY 431 G LYS 432 n 253 LYS 432 G ALA 433 n 254 ALA 433 G MET 434 n 255 MET 434 G TYR 435 n 256 TYR 435 G ALA 436 n 257 ALA 436 G PRO 437 n 258 PRO 437 G PRO 438 n 259 PRO 438 G ILE 439 n 260 ILE 439 G ARG 440 n 261 ARG 440 G GLY 441 n 262 GLY 441 G GLN 442 n 263 GLN 442 G ILE 443 n 264 ILE 443 G ARG 444 n 265 ARG 444 G CYS 445 n 266 CYS 445 G SER 446 n 267 SER 446 G SER 447 n 268 SER 447 G ASN 448 n 269 ASN 448 G ILE 449 n 270 ILE 449 G THR 450 n 271 THR 450 G GLY 451 n 272 GLY 451 G LEU 452 n 273 LEU 452 G LEU 453 n 274 LEU 453 G LEU 454 n 275 LEU 454 G THR 455 n 276 THR 455 G ARG 456 n 277 ARG 456 G ASP 457 n 278 ASP 457 G n 279 458 G n 280 459 G n 281 460 G n 282 461 G n 283 462 G ASN 463 n 284 ASN 463 G GLY 464 n 285 GLY 464 G THR 465 n 286 THR 465 G GLU 466 n 287 GLU 466 G ILE 467 n 288 ILE 467 G PHE 468 n 289 PHE 468 G ARG 469 n 290 ARG 469 G PRO 470 n 291 PRO 470 G GLY 471 n 292 GLY 471 G GLY 472 n 293 GLY 472 G GLY 473 n 294 GLY 473 G ASP 474 n 295 ASP 474 G MET 475 n 296 MET 475 G ARG 476 n 297 ARG 476 G ASP 477 n 298 ASP 477 G ASN 478 n 299 ASN 478 G TRP 479 n 300 TRP 479 G ARG 480 n 301 ARG 480 G SER 481 n 302 SER 481 G GLU 482 n 303 GLU 482 G LEU 483 n 304 LEU 483 G TYR 484 n 305 TYR 484 G LYS 485 n 306 LYS 485 G TYR 486 n 307 TYR 486 G LYS 487 n 308 LYS 487 G VAL 488 n 309 VAL 488 G VAL 489 n 310 VAL 489 G LYS 490 n 311 LYS 490 G ILE 491 n 312 ILE 491 G GLU 492 n 313 GLU 492 G n 1 1 L ILE 2 n 2 ILE 2 L GLN 3 n 3 GLN 3 L MET 4 n 4 MET 4 L THR 5 n 5 THR 5 L GLN 6 n 6 GLN 6 L SER 7 n 7 SER 7 L PRO 8 n 8 PRO 8 L SER 9 n 9 SER 9 L SER 10 n 10 SER 10 L VAL 11 n 11 VAL 11 L SER 12 n 12 SER 12 L ALA 13 n 13 ALA 13 L SER 14 n 14 SER 14 L VAL 15 n 15 VAL 15 L GLY 16 n 16 GLY 16 L ASP 17 n 17 ASP 17 L ARG 18 n 18 ARG 18 L VAL 19 n 19 VAL 19 L THR 20 n 20 THR 20 L ILE 21 n 21 ILE 21 L THR 22 n 22 THR 22 L CYS 23 n 23 CYS 23 L ARG 24 n 24 ARG 24 L ALA 25 n 25 ALA 25 L SER 26 n 26 SER 26 L GLN 27 n 27 GLN 27 L ASP 28 n 28 ASP 28 L ILE 29 n 29 ILE 29 L SER 30 n 30 SER 30 L THR 31 n 31 THR 31 L TRP 32 n 32 TRP 32 L LEU 33 n 33 LEU 33 L ALA 34 n 34 ALA 34 L TRP 35 n 35 TRP 35 L TYR 36 n 36 TYR 36 L GLN 37 n 37 GLN 37 L GLN 38 n 38 GLN 38 L LYS 39 n 39 LYS 39 L PRO 40 n 40 PRO 40 L GLY 41 n 41 GLY 41 L LYS 42 n 42 LYS 42 L ALA 43 n 43 ALA 43 L PRO 44 n 44 PRO 44 L LYS 45 n 45 LYS 45 L LEU 46 n 46 LEU 46 L LEU 47 n 47 LEU 47 L ILE 48 n 48 ILE 48 L TYR 49 n 49 TYR 49 L ALA 50 n 50 ALA 50 L ALA 51 n 51 ALA 51 L SER 52 n 52 SER 52 L THR 53 n 53 THR 53 L LEU 54 n 54 LEU 54 L GLN 55 n 55 GLN 55 L SER 56 n 56 SER 56 L GLY 57 n 57 GLY 57 L VAL 58 n 58 VAL 58 L PRO 59 n 59 PRO 59 L SER 60 n 60 SER 60 L ARG 61 n 61 ARG 61 L PHE 62 n 62 PHE 62 L SER 63 n 63 SER 63 L GLY 64 n 64 GLY 64 L SER 65 n 65 SER 65 L GLY 66 n 66 GLY 66 L SER 67 n 67 SER 67 L GLY 68 n 68 GLY 68 L THR 69 n 69 THR 69 L ASP 70 n 70 ASP 70 L PHE 71 n 71 PHE 71 L SER 72 n 72 SER 72 L LEU 73 n 73 LEU 73 L THR 74 n 74 THR 74 L ILE 75 n 75 ILE 75 L ASN 76 n 76 ASN 76 L SER 77 n 77 SER 77 L LEU 78 n 78 LEU 78 L GLN 79 n 79 GLN 79 L PRO 80 n 80 PRO 80 L GLU 81 n 81 GLU 81 L ASP 82 n 82 ASP 82 L PHE 83 n 83 PHE 83 L ALA 84 n 84 ALA 84 L THR 85 n 85 THR 85 L TYR 86 n 86 TYR 86 L TYR 87 n 87 TYR 87 L CYS 88 n 88 CYS 88 L GLN 89 n 89 GLN 89 L GLN 90 n 90 GLN 90 L ALA 91 n 91 ALA 91 L ASN 92 n 92 ASN 92 L SER 93 n 93 SER 93 L PHE 94 n 94 PHE 94 L PHE 95 n 95 PHE 95 L THR 96 n 96 THR 96 L PHE 97 n 97 PHE 97 L GLY 98 n 98 GLY 98 L GLY 99 n 99 GLY 99 L GLY 100 n 100 GLY 100 L THR 101 n 101 THR 101 L LYS 102 n 102 LYS 102 L VAL 103 n 103 VAL 103 L GLU 104 n 104 GLU 104 L ILE 105 n 105 ILE 105 L LYS 106 n 106 LYS 106 L ARG 107 n 107 ARG 107 L THR 108 n 108 THR 108 L VAL 109 n 109 VAL 109 L ALA 110 n 110 ALA 110 L ALA 111 n 111 ALA 111 L PRO 112 n 112 PRO 112 L SER 113 n 113 SER 113 L VAL 114 n 114 VAL 114 L PHE 115 n 115 PHE 115 L ILE 116 n 116 ILE 116 L PHE 117 n 117 PHE 117 L PRO 118 n 118 PRO 118 L PRO 119 n 119 PRO 119 L SER 120 n 120 SER 120 L ASP 121 n 121 ASP 121 L GLU 122 n 122 GLU 122 L GLN 123 n 123 GLN 123 L LEU 124 n 124 LEU 124 L LYS 125 n 125 LYS 125 L SER 126 n 126 SER 126 L GLY 127 n 127 GLY 127 L THR 128 n 128 THR 128 L ALA 129 n 129 ALA 129 L SER 130 n 130 SER 130 L VAL 131 n 131 VAL 131 L VAL 132 n 132 VAL 132 L CYS 133 n 133 CYS 133 L LEU 134 n 134 LEU 134 L LEU 135 n 135 LEU 135 L ASN 136 n 136 ASN 136 L ASN 137 n 137 ASN 137 L PHE 138 n 138 PHE 138 L TYR 139 n 139 TYR 139 L PRO 140 n 140 PRO 140 L ARG 141 n 141 ARG 141 L GLU 142 n 142 GLU 142 L ALA 143 n 143 ALA 143 L LYS 144 n 144 LYS 144 L VAL 145 n 145 VAL 145 L GLN 146 n 146 GLN 146 L TRP 147 n 147 TRP 147 L LYS 148 n 148 LYS 148 L VAL 149 n 149 VAL 149 L ASP 150 n 150 ASP 150 L ASN 151 n 151 ASN 151 L ALA 152 n 152 ALA 152 L LEU 153 n 153 LEU 153 L GLN 154 n 154 GLN 154 L SER 155 n 155 SER 155 L GLY 156 n 156 GLY 156 L ASN 157 n 157 ASN 157 L SER 158 n 158 SER 158 L GLN 159 n 159 GLN 159 L GLU 160 n 160 GLU 160 L SER 161 n 161 SER 161 L VAL 162 n 162 VAL 162 L THR 163 n 163 THR 163 L GLU 164 n 164 GLU 164 L GLN 165 n 165 GLN 165 L ASP 166 n 166 ASP 166 L SER 167 n 167 SER 167 L LYS 168 n 168 LYS 168 L ASP 169 n 169 ASP 169 L SER 170 n 170 SER 170 L THR 171 n 171 THR 171 L TYR 172 n 172 TYR 172 L SER 173 n 173 SER 173 L LEU 174 n 174 LEU 174 L SER 175 n 175 SER 175 L SER 176 n 176 SER 176 L THR 177 n 177 THR 177 L LEU 178 n 178 LEU 178 L THR 179 n 179 THR 179 L LEU 180 n 180 LEU 180 L SER 181 n 181 SER 181 L LYS 182 n 182 LYS 182 L ALA 183 n 183 ALA 183 L ASP 184 n 184 ASP 184 L TYR 185 n 185 TYR 185 L GLU 186 n 186 GLU 186 L LYS 187 n 187 LYS 187 L HIS 188 n 188 HIS 188 L LYS 189 n 189 LYS 189 L LEU 190 n 190 LEU 190 L TYR 191 n 191 TYR 191 L ALA 192 n 192 ALA 192 L CYS 193 n 193 CYS 193 L GLU 194 n 194 GLU 194 L VAL 195 n 195 VAL 195 L THR 196 n 196 THR 196 L HIS 197 n 197 HIS 197 L GLN 198 n 198 GLN 198 L GLY 199 n 199 GLY 199 L LEU 200 n 200 LEU 200 L SER 201 n 201 SER 201 L SER 202 n 202 SER 202 L PRO 203 n 203 PRO 203 L VAL 204 n 204 VAL 204 L THR 205 n 205 THR 205 L LYS 206 n 206 LYS 206 L SER 207 n 207 SER 207 L PHE 208 n 208 PHE 208 L ASN 209 n 209 ASN 209 L ARG 210 n 210 ARG 210 L GLY 211 n 211 GLY 211 L GLU 212 n 212 GLU 212 L GLU 1 n 1 GLU 1 H VAL 2 n 2 VAL 2 H GLN 3 n 3 GLN 3 H LEU 4 n 4 LEU 4 H VAL 5 n 5 VAL 5 H GLN 6 n 6 GLN 6 H SER 7 n 7 SER 7 H GLY 8 n 8 GLY 8 H ALA 9 n 9 ALA 9 H GLU 10 n 10 GLU 10 H VAL 11 n 11 VAL 11 H LYS 12 n 12 LYS 12 H LYS 13 n 13 LYS 13 H PRO 14 n 14 PRO 14 H GLY 15 n 15 GLY 15 H ALA 16 n 16 ALA 16 H THR 17 n 17 THR 17 H VAL 18 n 18 VAL 18 H LYS 19 n 19 LYS 19 H ILE 20 n 20 ILE 20 H SER 21 n 21 SER 21 H CYS 22 n 22 CYS 22 H LYS 23 n 23 LYS 23 H ALA 24 n 24 ALA 24 H SER 25 n 25 SER 25 H GLY 26 n 26 GLY 26 H TYR 27 n 27 TYR 27 H THR 28 n 28 THR 28 H PHE 29 n 29 PHE 29 H SER 30 n 30 SER 30 H ASP 31 n 31 ASP 31 H PHE 32 n 32 PHE 32 H TYR 33 n 33 TYR 33 H MET 34 n 34 MET 34 H TYR 35 n 35 TYR 35 H TRP 36 n 36 TRP 36 H VAL 37 n 37 VAL 37 H ARG 38 n 38 ARG 38 H GLN 39 n 39 GLN 39 H ALA 40 n 40 ALA 40 H PRO 41 n 41 PRO 41 H GLY 42 n 42 GLY 42 H LYS 43 n 43 LYS 43 H GLY 44 n 44 GLY 44 H LEU 45 n 45 LEU 45 H GLU 46 n 46 GLU 46 H TRP 47 n 47 TRP 47 H MET 48 n 48 MET 48 H GLY 49 n 49 GLY 49 H LEU 50 n 50 LEU 50 H ILE 51 n 51 ILE 51 H ASP 52 n 52 ASP 52 H PRO 53 n 53 PRO 53 H GLU 54 n 54 GLU 54 H ASP 55 n 55 ASP 55 H ALA 56 n 56 ALA 56 H ASP 57 n 57 ASP 57 H THR 58 n 58 THR 58 H MET 59 n 59 MET 59 H TYR 60 n 60 TYR 60 H ALA 61 n 61 ALA 61 H GLU 62 n 62 GLU 62 H LYS 63 n 63 LYS 63 H PHE 64 n 64 PHE 64 H ARG 65 n 65 ARG 65 H GLY 66 n 66 GLY 66 H ARG 67 n 67 ARG 67 H VAL 68 n 68 VAL 68 H THR 69 n 69 THR 69 H ILE 70 n 70 ILE 70 H THR 71 n 71 THR 71 H ALA 72 n 72 ALA 72 H ASP 73 n 73 ASP 73 H THR 74 n 74 THR 74 H SER 75 n 75 SER 75 H THR 76 n 76 THR 76 H ASP 77 n 77 ASP 77 H THR 78 n 78 THR 78 H GLY 79 n 79 GLY 79 H TYR 80 n 80 TYR 80 H LEU 81 n 81 LEU 81 H GLU 82 n 82 GLU 82 H LEU 83 n 83 LEU 83 H SER 84 n 84 SER 84 H SER 85 n 85 SER 85 H LEU 86 n 86 LEU 86 H ARG 87 n 87 ARG 87 H SER 88 n 88 SER 88 H GLU 89 n 89 GLU 89 H ASP 90 n 90 ASP 90 H THR 91 n 91 THR 91 H ALA 92 n 92 ALA 92 H VAL 93 n 93 VAL 93 H TYR 94 n 94 TYR 94 H TYR 95 n 95 TYR 95 H CYS 96 n 96 CYS 96 H ALA 97 n 97 ALA 97 H ALA 98 n 98 ALA 98 H ASP 99 n 99 ASP 99 H PRO 100 n 100 PRO 100 H TRP 101 n 101 TRP 101 H GLU 102 n 102 GLU 102 H LEU 103 n 103 LEU 103 H ASN 104 n 104 ASN 104 H ALA 105 n 105 ALA 105 H PHE 106 n 106 PHE 106 H ASN 107 n 107 ASN 107 H VAL 108 n 108 VAL 108 H TRP 109 n 109 TRP 109 H GLY 110 n 110 GLY 110 H GLN 111 n 111 GLN 111 H GLY 112 n 112 GLY 112 H THR 113 n 113 THR 113 H LEU 114 n 114 LEU 114 H VAL 115 n 115 VAL 115 H SER 116 n 116 SER 116 H VAL 117 n 117 VAL 117 H SER 118 n 118 SER 118 H SER 119 n 119 SER 119 H ALA 120 n 120 ALA 120 H SER 121 n 121 SER 121 H THR 122 n 122 THR 122 H LYS 123 n 123 LYS 123 H GLY 124 n 124 GLY 124 H PRO 125 n 125 PRO 125 H SER 126 n 126 SER 126 H VAL 127 n 127 VAL 127 H PHE 128 n 128 PHE 128 H PRO 129 n 129 PRO 129 H LEU 130 n 130 LEU 130 H ALA 131 n 131 ALA 131 H PRO 132 n 132 PRO 132 H SER 133 n 133 SER 133 H SER 134 n 134 SER 134 H LYS 135 n 135 LYS 135 H SER 136 n 136 SER 136 H THR 137 n 137 THR 137 H SER 138 n 138 SER 138 H GLY 139 n 139 GLY 139 H GLY 140 n 140 GLY 140 H THR 141 n 141 THR 141 H ALA 142 n 142 ALA 142 H ALA 143 n 143 ALA 143 H LEU 144 n 144 LEU 144 H GLY 145 n 145 GLY 145 H CYS 146 n 146 CYS 146 H LEU 147 n 147 LEU 147 H VAL 148 n 148 VAL 148 H LYS 149 n 149 LYS 149 H ASP 150 n 150 ASP 150 H TYR 151 n 151 TYR 151 H PHE 152 n 152 PHE 152 H PRO 153 n 153 PRO 153 H GLU 154 n 154 GLU 154 H PRO 155 n 155 PRO 155 H VAL 156 n 156 VAL 156 H THR 157 n 157 THR 157 H VAL 158 n 158 VAL 158 H SER 159 n 159 SER 159 H TRP 160 n 160 TRP 160 H ASN 161 n 161 ASN 161 H SER 162 n 162 SER 162 H GLY 163 n 163 GLY 163 H ALA 164 n 164 ALA 164 H LEU 165 n 165 LEU 165 H THR 166 n 166 THR 166 H SER 167 n 167 SER 167 H GLY 168 n 168 GLY 168 H VAL 169 n 169 VAL 169 H HIS 170 n 170 HIS 170 H THR 171 n 171 THR 171 H PHE 172 n 172 PHE 172 H PRO 173 n 173 PRO 173 H ALA 174 n 174 ALA 174 H VAL 175 n 175 VAL 175 H LEU 176 n 176 LEU 176 H GLN 177 n 177 GLN 177 H SER 178 n 178 SER 178 H SER 179 n 179 SER 179 H GLY 180 n 180 GLY 180 H LEU 181 n 181 LEU 181 H TYR 182 n 182 TYR 182 H SER 183 n 183 SER 183 H LEU 184 n 184 LEU 184 H SER 185 n 185 SER 185 H SER 186 n 186 SER 186 H VAL 187 n 187 VAL 187 H VAL 188 n 188 VAL 188 H THR 189 n 189 THR 189 H VAL 190 n 190 VAL 190 H PRO 191 n 191 PRO 191 H SER 192 n 192 SER 192 H SER 193 n 193 SER 193 H SER 194 n 194 SER 194 H LEU 195 n 195 LEU 195 H GLY 196 n 196 GLY 196 H THR 197 n 197 THR 197 H GLN 198 n 198 GLN 198 H THR 199 n 199 THR 199 H TYR 200 n 200 TYR 200 H ILE 201 n 201 ILE 201 H CYS 202 n 202 CYS 202 H ASN 203 n 203 ASN 203 H VAL 204 n 204 VAL 204 H ASN 205 n 205 ASN 205 H HIS 206 n 206 HIS 206 H LYS 207 n 207 LYS 207 H PRO 208 n 208 PRO 208 H SER 209 n 209 SER 209 H ASN 210 n 210 ASN 210 H THR 211 n 211 THR 211 H LYS 212 n 212 LYS 212 H VAL 213 n 213 VAL 213 H ASP 214 n 214 ASP 214 H LYS 215 n 215 LYS 215 H LYS 216 n 216 LYS 216 H VAL 217 n 217 VAL 217 H GLU 218 n 218 GLU 218 H PRO 219 n 219 PRO 219 H 4.3939 -3.2548 2.3038 6.6073 -1.5238 3.6797 0.1752 -0.0979 -0.0567 -0.0924 -0.0224 -0.4238 0.1660 0.3224 -0.1392 0.4390 -0.0278 0.0039 0.4890 -0.1111 0.3686 refined 43.4667 6.0101 87.9153 X-RAY DIFFRACTION 3.9122 -1.3859 0.4538 3.8768 -0.2043 3.6564 -0.0349 -0.2795 0.1358 0.3244 0.2250 -0.4710 -0.1653 0.1099 -0.1996 0.4549 -0.0504 0.0162 0.3299 -0.0321 0.3893 refined 41.9438 21.6070 100.7025 X-RAY DIFFRACTION 4.4743 -0.4195 2.2937 7.7229 -2.8066 4.9214 -0.3318 -0.0699 -0.0045 0.7412 0.4413 0.0364 -0.1766 -0.0215 -0.1119 0.4737 0.0477 0.0158 0.4931 0.0291 0.3524 refined 23.2974 45.8486 80.9719 X-RAY DIFFRACTION 7.1487 -0.1064 2.1727 4.3729 -0.6992 3.6958 -0.1638 -0.5053 0.2242 0.1004 0.0405 0.2325 -0.7514 -0.8182 0.1847 0.6729 0.1294 0.0154 0.6693 0.0102 0.3742 refined 2.5121 69.0879 65.1466 X-RAY DIFFRACTION 1.7299 -0.7662 1.9664 0.3289 -0.8376 2.1675 0.0586 -0.4352 -1.0138 0.1836 0.6610 1.0092 0.1456 -0.6500 -0.4383 0.4198 -0.1262 -0.0510 0.6747 0.3924 0.9283 refined 3.9875 34.7810 76.4624 X-RAY DIFFRACTION 5.3603 2.8943 -0.3762 8.1240 -3.1084 5.2099 0.1881 -0.1572 -0.0655 -0.2347 -0.0151 0.5624 -0.7008 -0.2828 -0.1946 0.5335 0.1257 0.0824 0.4290 0.0411 0.4090 refined -0.1816 60.9847 51.7526 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 chain G and (resid 1:252 or resid 474:492) X-RAY DIFFRACTION 2 chain G and resid 253:473 X-RAY DIFFRACTION 3 chain H and resid 1:118 X-RAY DIFFRACTION 4 chain H and resid 119:219 X-RAY DIFFRACTION 5 chain L and resid 1:108 X-RAY DIFFRACTION 6 chain L and resid 109:212 author_and_software_defined_assembly PISA 3 trimeric 7880 -4 33050 G ASN 289 GLYCOSYLATION SITE A ASN 134 ASN G ASN 276 GLYCOSYLATION SITE A ASN 121 ASN G ASN 295 GLYCOSYLATION SITE A ASN 140 ASN G ASN 386 GLYCOSYLATION SITE A ASN 215 ASN G ASN 234 GLYCOSYLATION SITE A ASN 79 ASN G ASN 262 GLYCOSYLATION SITE A ASN 107 ASN G ASN 448 GLYCOSYLATION SITE A ASN 269 ASN 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 G N PHE 93 A N PHE 11 G O GLY 237 A O GLY 82 G O ILE 201 A O ILE 46 G N LYS 121 A N LYS 39 G N LEU 122 A N LEU 40 G O LYS 432 A O LYS 253 G O ALA 433 A O ALA 254 G N ILE 424 A N ILE 245 G O SER 243 A O SER 88 G N LYS 227 A N LYS 72 G N ALA 224 A N ALA 69 G O VAL 489 A O VAL 310 G N LEU 260 A N LEU 105 G O GLY 451 A O GLY 272 G O LEU 454 A O LEU 275 G N ILE 284 A N ILE 129 G O GLU 466 A O GLU 287 G N ILE 360 A N ILE 189 G N ARG 273 A N ARG 118 G O ILE 285 A O ILE 130 G N ILE 284 A N ILE 129 G O LEU 454 A O LEU 275 G N CYS 331 A N CYS 160 G O LEU 416 A O LEU 237 G O ARG 419 A O ARG 240 G N TYR 384 A N TYR 213 G O PHE 383 A O PHE 212 G N PHE 376 A N PHE 205 L N THR 5 B N THR 5 L O ARG 24 B O ARG 24 L N ILE 21 B N ILE 21 L O LEU 73 B O LEU 73 L O THR 74 B O THR 74 L N SER 63 B N SER 63 L N VAL 11 B N VAL 11 L O GLU 104 B O GLU 104 L O THR 101 B O THR 101 L N TYR 86 B N TYR 86 L O THR 85 B O THR 85 L N GLN 38 B N GLN 38 L N TRP 35 B N TRP 35 L O ILE 48 B O ILE 48 L N TYR 49 B N TYR 49 L O THR 53 B O THR 53 L N PHE 115 B N PHE 115 L O LEU 134 B O LEU 134 L N VAL 131 B N VAL 131 L O LEU 178 B O LEU 178 L O THR 177 B O THR 177 L N GLN 159 B N GLN 159 L O ALA 152 B O ALA 152 L N VAL 149 B N VAL 149 L N LYS 148 B N LYS 148 L O ALA 192 B O ALA 192 L N VAL 195 B N VAL 195 L O VAL 204 B O VAL 204 H N VAL 5 C N VAL 5 H O LYS 23 C O LYS 23 H N ILE 20 C N ILE 20 H O LEU 81 C O LEU 81 H O TYR 80 C O TYR 80 H N THR 71 C N THR 71 H N LYS 12 C N LYS 12 H O SER 116 C O SER 116 H O VAL 115 C O VAL 115 H N ALA 92 C N ALA 92 H O TYR 95 C O TYR 95 H N VAL 37 C N VAL 37 H N TRP 36 C N TRP 36 H O MET 48 C O MET 48 H N ASP 52 C N ASP 52 H O ASP 57 C O ASP 57 H N LYS 12 C N LYS 12 H O SER 116 C O SER 116 H O VAL 115 C O VAL 115 H N ALA 92 C N ALA 92 H N ALA 98 C N ALA 98 H O VAL 108 C O VAL 108 H N PHE 128 C N PHE 128 H O LEU 147 C O LEU 147 H N LEU 144 C N LEU 144 H O VAL 188 C O VAL 188 H O VAL 187 C O VAL 187 H N HIS 170 C N HIS 170 H N SER 138 C N SER 138 H O THR 141 C O THR 141 H N LEU 144 C N LEU 144 H O VAL 188 C O VAL 188 H O SER 183 C O SER 183 H N VAL 175 C N VAL 175 H N SER 159 C N SER 159 H O ASN 203 C O ASN 203 H N HIS 206 C N HIS 206 H O THR 211 C O THR 211 1 G OD2 ASP 230 A OD2 ASP 75 0 Y 1 G GLU 83 A GLU 1 1 Y 1 G VAL 84 A VAL 2 1 Y 1 G LYS 85 A LYS 3 1 Y 1 G LEU 86 A LEU 4 1 Y 1 G GLU 87 A GLU 5 1 Y 1 G ASN 88 A ASN 6 1 Y 1 G VAL 89 A VAL 7 1 Y 1 G GLY 318 A GLY 147 1 Y 1 G GLY 319 A GLY 148 1 Y 1 G SER 320 A SER 149 1 Y 1 G GLY 321 A GLY 150 1 Y 1 G SER 322 A SER 151 1 Y 1 G GLY 323 A GLY 152 1 Y 1 G ARG 405 A ARG 226 1 Y 1 G LYS 406 A LYS 227 1 Y 1 G LEU 407 A LEU 228 1 Y 1 G ASN 408 A ASN 229 1 Y 1 G ASN 409 A ASN 230 1 Y 1 G THR 410 A THR 231 1 Y 1 G GLY 411 A GLY 232 1 Y 1 G GLY 458 A GLY 279 1 Y 1 G GLY 459 A GLY 280 1 Y 1 G LYS 460 A LYS 281 1 Y 1 G ASP 461 A ASP 282 1 Y 1 G THR 462 A THR 283 1 Y 1 L ASP 1 B ASP 1 1 Y 1 G G O O HOH HOH 647 650 1.86 1 G G O O HOH HOH 643 644 1.90 1 G G SG CB CYS CYS 119 205 1.94 1 H H OG O SER HOH 7 302 2.00 1 G G ND2 C2 ASN NAG 289 504 2.04 1 L L OH O TYR HOH 185 320 2.06 1 G G N O LYS HOH 97 617 2.06 1 H H O O HOH HOH 323 329 2.09 1 H H N O ASP HOH 214 308 2.11 1 G G NH1 O ARG HOH 419 618 2.15 1 G G O O TYR HOH 435 637 2.15 1 G G O NH1 PHE ARG 233 273 2.15 1 L L NE2 O GLN HOH 123 315 2.16 1 H H O O HOH HOH 326 328 2.16 1 L L OG OD1 SER ASP 181 184 2.16 1 G G O O GLY HOH 472 639 2.16 1 G G N O LYS HOH 232 623 2.18 1 G G OE1 O GLU HOH 211 632 2.19 1 G LEU 116 -107.20 75.14 1 G ASN 229 -112.99 64.04 1 G ASN 241 -109.00 79.41 1 G PRO 253 -59.52 81.86 1 G GLN 258 63.88 -60.61 1 G GLU 268 -98.21 -79.77 1 G ASN 276 -169.35 88.73 1 G SER 387 -114.91 59.89 1 L SER 30 56.97 -121.61 1 L SER 52 -163.65 -45.18 1 L PRO 59 -47.38 150.48 1 L ALA 84 -170.53 -163.04 1 L ALA 91 -154.27 34.18 1 L SER 93 -143.80 -58.74 1 L ASN 137 52.46 90.19 1 L PRO 140 -70.00 -165.21 1 L LYS 189 -132.14 -44.59 1 H PRO 14 -58.07 97.26 1 H THR 28 -65.72 98.27 1 H LEU 130 -113.45 74.43 1 H SER 133 -171.87 -177.45 1 H SER 136 -143.57 21.20 1 H ASP 150 58.17 71.87 1 H PRO 153 -95.97 -158.64 1 H THR 197 -134.93 -46.38 71.8165 2.8745 0.0000 0.0000 -0.3003 -0.0000 -2.5742 0.2887 0.2284 0.2333 2.5 49.4 1970 27496 24129 8.16 87.79 1.000 0.000 0.46 1 1.42 MOLECULAR REPLACEMENT 35.42 0.90 1.11 pdb entry 1RZK ML FLAT BULK SOLVENT MODEL 2.5 49.4 113 5767 121 0 5533 0.001 5792 0.359 7862 7.027 2116 0.022 895 0.002 998 0.4201 0.3274 2.5591 90 1009 56.00 0.4125 0.3145 2.6283 100 1163 66.00 0.3581 0.3217 2.7056 113 1264 72.00 0.4188 0.3084 2.7929 122 1363 76.00 0.4086 0.3060 2.8927 133 1482 84.00 0.4087 0.2947 3.0085 141 1576 88.00 0.3515 0.2928 3.1454 151 1691 94.00 0.3036 0.2634 3.3112 153 1721 97.00 0.3366 0.2444 3.5186 156 1758 99.00 0.2584 0.2337 3.7902 159 1793 99.00 0.2926 0.2098 4.1715 160 1793 99.00 0.2302 0.1835 4.7747 159 1803 99.00 0.2446 0.1957 6.0139 164 1833 99.00 0.2651 0.2117 49.4776 169 1910 98.00 56.8 2.5 49.4 4DVR 27379 24559 0.0 0 0.134 0.155 1 11.04 4.6 89.7 0.497 2.5 2.54 2.2 0.46 1 1.8 62.9 refinement Paul D. Adams PDAdams@lbl.gov C++ http://www.phenix-online.org/ PHENIX package 1.8_1069 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 data collection HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing PHASES Crystal structure of YU2 gp120 core in complex with Fab 48d and NBD-557 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N 4 N N 4 N N 4 N N 4 N N 5 N N 6 N N 6 N N 6 N N monomer G ASN 99 A ASN 17 HELX_P G LEU 116 A LEU 34 1 1 18 G LYS 335 A LYS 164 HELX_P G GLY 354 A GLY 183 1 2 20 G ASP 368 A ASP 197 HELX_P G THR 373 A THR 202 1 3 6 G ASP 474 A ASP 295 HELX_P G SER 481 A SER 302 1 4 8 L SER 120 B SER 120 HELX_P L GLY 127 B GLY 127 1 5 8 L LYS 182 B LYS 182 HELX_P L LYS 187 B LYS 187 1 6 6 H THR 28 C THR 28 HELX_P H PHE 32 C PHE 32 5 7 5 H ARG 87 C ARG 87 HELX_P H THR 91 C THR 91 5 8 5 H SER 193 C SER 193 HELX_P H LEU 195 C LEU 195 5 9 3 H LYS 207 C LYS 207 HELX_P H ASN 210 C ASN 210 5 10 4 disulf 2.033 G CYS 119 A SG CYS 37 1_555 G CYS 205 A SG CYS 50 1_555 disulf 2.031 G CYS 218 A SG CYS 63 1_555 G CYS 247 A SG CYS 92 1_555 disulf 2.031 G CYS 228 A SG CYS 73 1_555 G CYS 239 A SG CYS 84 1_555 disulf 2.031 G CYS 296 A SG CYS 141 1_555 G CYS 331 A SG CYS 160 1_555 disulf 2.030 G CYS 378 A SG CYS 207 1_555 G CYS 445 A SG CYS 266 1_555 disulf 2.031 G CYS 385 A SG CYS 214 1_555 G CYS 418 A SG CYS 239 1_555 disulf 2.031 L CYS 23 B SG CYS 23 1_555 L CYS 88 B SG CYS 88 1_555 disulf 2.034 L CYS 133 B SG CYS 133 1_555 L CYS 193 B SG CYS 193 1_555 disulf 2.032 H CYS 22 C SG CYS 22 1_555 H CYS 96 C SG CYS 96 1_555 disulf 2.031 H CYS 146 C SG CYS 146 1_555 H CYS 202 C SG CYS 202 1_555 covale 1.440 one N-Glycosylation G ASN 234 A ND2 ASN 79 1_555 G NAG 501 D C1 NAG 1_555 covale 1.441 one N-Glycosylation G ASN 262 A ND2 ASN 107 1_555 G NAG 502 E C1 NAG 1_555 covale 1.439 one N-Glycosylation G ASN 276 A ND2 ASN 121 1_555 G NAG 503 F C1 NAG 1_555 covale 1.439 one N-Glycosylation G ASN 289 A ND2 ASN 134 1_555 G NAG 504 G C1 NAG 1_555 covale 1.440 one N-Glycosylation G ASN 295 A ND2 ASN 140 1_555 G NAG 505 H C1 NAG 1_555 covale 1.440 one N-Glycosylation G ASN 386 A ND2 ASN 215 1_555 G NAG 506 I C1 NAG 1_555 covale 1.442 one N-Glycosylation G ASN 448 A ND2 ASN 269 1_555 G NAG 507 J C1 NAG 1_555 IMMUNE SYSTEM/TRANSCRIPTION INHIBITOR HIV-1 gp120, CD4 binding site, NBD-557, IMMUNE SYSTEM-TRANSCRIPTION INHIBITOR complex L SER 7 B SER 7 1 L PRO 8 B PRO 8 -1.33 L TYR 139 B TYR 139 1 L PRO 140 B PRO 140 0.90 H PHE 152 C PHE 152 1 H PRO 153 C PRO 153 -2.40 H GLU 154 C GLU 154 1 H PRO 155 C PRO 155 -0.86 ENV_HV1Y2 UNP 1 82 P35961 EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLT ENV_HV1Y2 UNP 1 195 P35961 SVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFT NNAKTIIVQLNESVVINCTRPNN ENV_HV1Y2 UNP 1 319 P35961 GDIRQAHCNLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTG RNITLPCRIKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKI E 4DVR PDB 2 1 4DVR 4DVR PDB 3 1 4DVR 82 122 4DVR 83 123 P35961 G 1 1 41 195 297 4DVR 199 301 P35961 G 2 44 146 319 479 4DVR 324 492 P35961 G 3 153 313 1 212 4DVR 1 212 4DVR L 4 1 212 1 219 4DVR 1 219 4DVR H 5 1 219 1 linker GLY 124 4DVR G P35961 UNP 42 1 linker GLY 198 4DVR G P35961 UNP 43 2 linker GLY 318 4DVR G P35961 UNP 147 2 linker GLY 319 4DVR G P35961 UNP 148 2 linker SER 320 4DVR G P35961 UNP 149 2 linker GLY 321 4DVR G P35961 UNP 150 2 linker SER 322 4DVR G P35961 UNP 151 2 linker GLY 323 4DVR G P35961 UNP 152 2 4 3 5 7 4 6 4 4 4 6 4 4 4 3 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel G ASN 92 A ASN 10 G ASN 94 A ASN 12 G THR 236 A THR 81 G PRO 238 A PRO 83 G VAL 200 A VAL 45 G THR 202 A THR 47 G VAL 120 A VAL 38 G LEU 122 A LEU 40 G LYS 432 A LYS 253 G MET 434 A MET 255 G ILE 423 A ILE 244 G ASN 425 A ASN 246 G VAL 242 A VAL 87 G VAL 245 A VAL 90 G PHE 223 A PHE 68 G CYS 228 A CYS 73 G TYR 486 A TYR 307 G LYS 490 A LYS 311 G LEU 259 A LEU 104 G LEU 261 A LEU 106 G ILE 443 A ILE 264 G ARG 456 A ARG 277 G ILE 284 A ILE 129 G ARG 298 A ARG 143 G GLU 466 A GLU 287 G PRO 470 A PRO 291 G ILE 359 A ILE 188 G PHE 361 A PHE 190 G VAL 271 A VAL 116 G SER 274 A SER 119 G ILE 284 A ILE 129 G ARG 298 A ARG 143 G ILE 443 A ILE 264 G ARG 456 A ARG 277 G GLN 328 A GLN 157 G SER 334 A SER 163 G ASN 413 A ASN 234 G LYS 421 A LYS 242 G GLU 381 A GLU 210 G CYS 385 A CYS 214 G HIS 374 A HIS 203 G CYS 378 A CYS 207 L MET 4 B MET 4 L SER 7 B SER 7 L VAL 19 B VAL 19 L ALA 25 B ALA 25 L ASP 70 B ASP 70 L ILE 75 B ILE 75 L PHE 62 B PHE 62 L SER 67 B SER 67 L SER 10 B SER 10 L ALA 13 B ALA 13 L THR 101 B THR 101 L ILE 105 B ILE 105 L THR 85 B THR 85 L GLN 90 B GLN 90 L LEU 33 B LEU 33 L GLN 38 B GLN 38 L LYS 45 B LYS 45 L TYR 49 B TYR 49 L THR 53 B THR 53 L LEU 54 B LEU 54 L SER 113 B SER 113 L PHE 117 B PHE 117 L THR 128 B THR 128 L PHE 138 B PHE 138 L TYR 172 B TYR 172 L SER 181 B SER 181 L SER 158 B SER 158 L VAL 162 B VAL 162 L ALA 152 B ALA 152 L GLN 154 B GLN 154 L LYS 144 B LYS 144 L VAL 149 B VAL 149 L LEU 190 B LEU 190 L THR 196 B THR 196 L VAL 204 B VAL 204 L ASN 209 B ASN 209 H GLN 3 C GLN 3 H GLN 6 C GLN 6 H VAL 18 C VAL 18 H SER 25 C SER 25 H THR 78 C THR 78 H LEU 83 C LEU 83 H VAL 68 C VAL 68 H ASP 73 C ASP 73 H GLU 10 C GLU 10 H LYS 12 C LYS 12 H THR 113 C THR 113 H VAL 117 C VAL 117 H ALA 92 C ALA 92 H ALA 98 C ALA 98 H MET 34 C MET 34 H GLN 39 C GLN 39 H LEU 45 C LEU 45 H ASP 52 C ASP 52 H ASP 57 C ASP 57 H TYR 60 C TYR 60 H GLU 10 C GLU 10 H LYS 12 C LYS 12 H THR 113 C THR 113 H VAL 117 C VAL 117 H ALA 92 C ALA 92 H ALA 98 C ALA 98 H VAL 108 C VAL 108 H TRP 109 C TRP 109 H SER 126 C SER 126 H LEU 130 C LEU 130 H THR 141 C THR 141 H TYR 151 C TYR 151 H TYR 182 C TYR 182 H PRO 191 C PRO 191 H VAL 169 C VAL 169 H THR 171 C THR 171 H THR 137 C THR 137 H SER 138 C SER 138 H THR 141 C THR 141 H TYR 151 C TYR 151 H TYR 182 C TYR 182 H PRO 191 C PRO 191 H VAL 175 C VAL 175 H LEU 176 C LEU 176 H THR 157 C THR 157 H TRP 160 C TRP 160 H TYR 200 C TYR 200 H HIS 206 C HIS 206 H THR 211 C THR 211 H VAL 217 C VAL 217 19 P 21 21 21