0.016658 0.009618 0.000000 0.000000 0.019235 0.000000 0.000000 0.000000 0.010421 0.00000 0.00000 0.00000 Liu, L. Matthews, B.W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 60.031 60.031 95.956 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 C6 Cl3 F3 235.418 1,3,5-trichloro-2,4,6-trifluorobenzene non-polymer 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 C4 H10 O2 S2 154.251 2-HYDROXYETHYL DISULFIDE non-polymer 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 C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking O4 P -3 94.971 PHOSPHATE ION non-polymer 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 N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O 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 N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N N N 75 R C N 76 N C N 77 N O N 78 N C N 79 N S N 80 N O 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 CL Y 89 N C Y 90 N C N 91 N F Y 92 N C N 93 N F Y 94 N C N 95 N CL Y 96 N C N 97 N F Y 98 N C N 99 N CL N 100 N N N 101 S C N 102 N C N 103 N O N 104 N C N 105 N C N 106 N C N 107 N O N 108 N N N 109 N O N 110 N H N 111 N H N 112 N H N 113 N H 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 N N 121 S C N 122 N C N 123 N O N 124 N C N 125 N C N 126 N C N 127 N O N 128 N O N 129 N O N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N N N 140 N C N 141 N C N 142 N O N 143 N O N 144 N H N 145 N H N 146 N H N 147 N H N 148 N H N 149 N C N 150 N O N 151 N C N 152 N S N 153 N S N 154 N C N 155 N C N 156 N O N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N N N 168 S C N 169 N C N 170 N O N 171 N C Y 172 N C Y 173 N N Y 174 N C Y 175 N C Y 176 N N N 177 N O N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N O N 189 N H N 190 N H N 191 N N N 192 S C N 193 N C N 194 N O N 195 S C N 196 N C N 197 N C N 198 N C N 199 N O N 200 N H N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N N N 214 S C N 215 N C N 216 N O N 217 N C N 218 N C N 219 N C N 220 N C N 221 N O 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 H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N N N 236 S C N 237 N C N 238 N O N 239 N C N 240 N C N 241 N C N 242 N C N 243 N N N 244 N O 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 H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N N N 261 S C N 262 N C N 263 N O N 264 N C N 265 N C N 266 N S N 267 N C N 268 N O 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 H N 278 N H N 279 N H N 280 N N N 281 S C N 282 N C N 283 N O N 284 N C Y 285 N C Y 286 N C Y 287 N C Y 288 N C Y 289 N C Y 290 N C N 291 N O N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N P N 304 N O N 305 N O N 306 N O N 307 N O N 308 N N N 309 S C N 310 N C N 311 N O N 312 N C N 313 N C N 314 N C N 315 N O 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 N N 326 S C N 327 N C N 328 N O N 329 N C N 330 N O N 331 N O N 332 N H N 333 N H N 334 N H N 335 N H N 336 N H N 337 N H N 338 N H N 339 N N N 340 S C N 341 N C N 342 N O N 343 R C N 344 N O N 345 N C N 346 N O N 347 N H N 348 N H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N N N 357 S C N 358 N C N 359 N O N 360 N C Y 361 N C Y 362 N C Y 363 N C Y 364 N N Y 365 N C Y 366 N C Y 367 N C Y 368 N C Y 369 N C N 370 N O N 371 N H N 372 N H N 373 N H 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 H N 382 N H N 383 N N N 384 S C N 385 N C N 386 N O N 387 N C Y 388 N C Y 389 N C Y 390 N C Y 391 N C Y 392 N C Y 393 N C N 394 N O N 395 N O N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N H N 407 N N N 408 S C N 409 N C N 410 N O N 411 N C N 412 N C N 413 N C N 414 N O 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 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 doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 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 doub 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 doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing 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 doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing Y 84 N doub Y 85 N sing N 86 N sing Y 87 N sing N 88 N sing Y 89 N doub N 90 N sing Y 91 N sing N 92 N sing Y 93 N doub N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N doub 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 sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N doub N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N doub 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 sing N 138 N doub 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 sing 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 sing 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 Y 169 N sing Y 170 N doub Y 171 N doub N 172 N sing Y 173 N sing N 174 N sing Y 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 sing N 184 N sing N 185 N sing N 186 N sing N 187 N doub N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 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 sing N 207 N sing N 208 N doub 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 sing N 228 N sing N 229 N doub 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 sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N doub 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 Y 277 N doub Y 278 N sing Y 279 N sing N 280 N sing Y 281 N doub N 282 N sing Y 283 N doub N 284 N sing Y 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N doub 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 doub 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 sing 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 doub N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N doub N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 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 sing N 345 N doub N 346 N sing N 347 N sing N 348 N sing N 349 N sing Y 350 N doub Y 351 N sing Y 352 N sing N 353 N sing Y 354 N doub Y 355 N sing Y 356 N sing N 357 N sing Y 358 N sing Y 359 N doub N 360 N sing Y 361 N doub N 362 N sing Y 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 doub N 374 N sing N 375 N sing N 376 N sing N 377 N sing Y 378 N doub Y 379 N sing Y 380 N sing N 381 N sing Y 382 N doub N 383 N sing Y 384 N doub N 385 N sing Y 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N doub N 398 N sing N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 385 595 605 10.1016/j.jmb.2008.10.086 19014950 Halogenated benzenes bound within a non-polar cavity in T4 lysozyme provide examples of I...S and I...Se halogen-bonding. 2009 10.2210/pdb3dn6/pdb pdb_00003dn6 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 IMAGE PLATE 2005-03-25 RIGAKU RAXIS IV Graphite SINGLE WAVELENGTH M x-ray 1 1.542 1.0 1.542 ROTATING ANODE RIGAKU RUH3R 18586.283 Lysozyme 3.2.1.17 C54T, C97A, L99A 1 man polymer 94.971 PHOSPHATE ION 2 syn non-polymer 235.418 1,3,5-trichloro-2,4,6-trifluorobenzene 1 syn non-polymer 154.251 2-HYDROXYETHYL DISULFIDE 2 syn non-polymer 18.015 water 240 nat water Lysis protein, Muramidase, Endolysin no no MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRAAAINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRAAAINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL 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 n n n n n n n n n n n n n n n n n n n n n n n n 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 E 10665 Bacteriophage T4 562 Escherichia coli 1 2.69 54.20 VAPOR DIFFUSION, HANGING DROP 6.9 2.0-2.2 M K/Na phosphate, pH 6.9, 5mM BME and 5mM oxidized BME. Complexes were prepared by soaking or vapor diffusion methods, VAPOR DIFFUSION, HANGING DROP, temperature 277K 277 database_2 struct_ref_seq_dif struct_site chem_comp_atom chem_comp_bond pdbx_initial_refinement_model repository Initial release Version format compliance Database references Derived calculations Data collection Refinement description 1 0 2008-11-11 1 1 2011-07-13 1 2 2021-10-20 1 3 2023-08-30 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id T4 lysozyme L99A bound with benzene at room temperature RCSB Y RCSB 2008-07-01 REL REL PO4 PHOSPHATE ION F3B 1,3,5-trichloro-2,4,6-trifluorobenzene HED 2-HYDROXYETHYL DISULFIDE HOH water 3DMV PDB entry 3DMV PDB experimental model PO4 901 2 PO4 PO4 901 A PO4 902 2 PO4 PO4 902 A F3B 900 3 F3B F3B 900 A HED 904 4 HED HED 904 A HED 905 4 HED HED 905 A HOH 1 5 HOH HOH 906 A HOH 2 5 HOH HOH 907 A HOH 3 5 HOH HOH 908 A HOH 4 5 HOH HOH 909 A HOH 5 5 HOH HOH 910 A HOH 6 5 HOH HOH 911 A HOH 7 5 HOH HOH 912 A HOH 8 5 HOH HOH 913 A HOH 9 5 HOH HOH 914 A HOH 10 5 HOH HOH 915 A HOH 11 5 HOH HOH 916 A HOH 12 5 HOH HOH 917 A HOH 13 5 HOH HOH 918 A HOH 14 5 HOH HOH 919 A HOH 15 5 HOH HOH 920 A HOH 16 5 HOH HOH 921 A HOH 17 5 HOH HOH 922 A HOH 18 5 HOH HOH 923 A HOH 19 5 HOH HOH 924 A HOH 20 5 HOH HOH 925 A HOH 21 5 HOH HOH 926 A HOH 22 5 HOH HOH 927 A HOH 23 5 HOH HOH 928 A HOH 24 5 HOH HOH 929 A HOH 25 5 HOH HOH 930 A HOH 26 5 HOH HOH 931 A HOH 27 5 HOH HOH 932 A HOH 28 5 HOH HOH 933 A HOH 29 5 HOH HOH 934 A HOH 30 5 HOH HOH 935 A HOH 31 5 HOH HOH 936 A HOH 32 5 HOH HOH 937 A HOH 33 5 HOH HOH 938 A HOH 34 5 HOH HOH 939 A HOH 35 5 HOH HOH 940 A HOH 36 5 HOH HOH 941 A HOH 37 5 HOH HOH 942 A HOH 38 5 HOH HOH 943 A HOH 39 5 HOH HOH 944 A HOH 40 5 HOH HOH 945 A HOH 41 5 HOH HOH 946 A HOH 42 5 HOH HOH 947 A HOH 43 5 HOH HOH 948 A HOH 44 5 HOH HOH 949 A HOH 45 5 HOH HOH 950 A HOH 46 5 HOH HOH 951 A HOH 47 5 HOH HOH 952 A HOH 48 5 HOH HOH 953 A HOH 49 5 HOH HOH 954 A HOH 50 5 HOH HOH 955 A HOH 51 5 HOH HOH 956 A HOH 52 5 HOH HOH 957 A HOH 53 5 HOH HOH 958 A HOH 54 5 HOH HOH 959 A HOH 55 5 HOH HOH 960 A HOH 56 5 HOH HOH 961 A HOH 57 5 HOH HOH 962 A HOH 58 5 HOH HOH 963 A HOH 59 5 HOH HOH 964 A HOH 60 5 HOH HOH 965 A HOH 61 5 HOH HOH 966 A HOH 62 5 HOH HOH 967 A HOH 63 5 HOH HOH 968 A HOH 64 5 HOH HOH 969 A HOH 65 5 HOH HOH 970 A HOH 66 5 HOH HOH 971 A HOH 67 5 HOH HOH 972 A HOH 68 5 HOH HOH 973 A HOH 69 5 HOH HOH 974 A HOH 70 5 HOH HOH 975 A HOH 71 5 HOH HOH 976 A HOH 72 5 HOH HOH 977 A HOH 73 5 HOH HOH 978 A HOH 74 5 HOH HOH 979 A HOH 75 5 HOH HOH 980 A HOH 76 5 HOH HOH 981 A HOH 77 5 HOH HOH 982 A HOH 78 5 HOH HOH 983 A HOH 79 5 HOH HOH 984 A HOH 80 5 HOH HOH 985 A HOH 81 5 HOH HOH 986 A HOH 82 5 HOH HOH 987 A HOH 83 5 HOH HOH 988 A HOH 84 5 HOH HOH 989 A HOH 85 5 HOH HOH 990 A HOH 86 5 HOH HOH 991 A HOH 87 5 HOH HOH 992 A HOH 88 5 HOH HOH 993 A HOH 89 5 HOH HOH 994 A HOH 90 5 HOH HOH 995 A HOH 91 5 HOH HOH 996 A HOH 92 5 HOH HOH 997 A HOH 93 5 HOH HOH 998 A HOH 94 5 HOH HOH 999 A HOH 95 5 HOH HOH 1000 A HOH 96 5 HOH HOH 1001 A HOH 97 5 HOH HOH 1002 A HOH 98 5 HOH HOH 1003 A HOH 99 5 HOH HOH 1004 A HOH 100 5 HOH HOH 1005 A HOH 101 5 HOH HOH 1006 A HOH 102 5 HOH HOH 1007 A HOH 103 5 HOH HOH 1008 A HOH 104 5 HOH HOH 1009 A HOH 105 5 HOH HOH 1010 A HOH 106 5 HOH HOH 1011 A HOH 107 5 HOH HOH 1012 A HOH 108 5 HOH HOH 1013 A HOH 109 5 HOH HOH 1014 A HOH 110 5 HOH HOH 1015 A HOH 111 5 HOH HOH 1016 A HOH 112 5 HOH HOH 1017 A HOH 113 5 HOH HOH 1018 A HOH 114 5 HOH HOH 1019 A HOH 115 5 HOH HOH 1020 A HOH 116 5 HOH HOH 1021 A HOH 117 5 HOH HOH 1022 A HOH 118 5 HOH HOH 1023 A HOH 119 5 HOH HOH 1024 A HOH 120 5 HOH HOH 1025 A HOH 121 5 HOH HOH 1026 A HOH 122 5 HOH HOH 1027 A HOH 123 5 HOH HOH 1028 A HOH 124 5 HOH HOH 1029 A HOH 125 5 HOH HOH 1030 A HOH 126 5 HOH HOH 1031 A HOH 127 5 HOH HOH 1032 A HOH 128 5 HOH HOH 1033 A HOH 129 5 HOH HOH 1034 A HOH 130 5 HOH HOH 1035 A HOH 131 5 HOH HOH 1036 A HOH 132 5 HOH HOH 1037 A HOH 133 5 HOH HOH 1038 A HOH 134 5 HOH HOH 1039 A HOH 135 5 HOH HOH 1040 A HOH 136 5 HOH HOH 1041 A HOH 137 5 HOH HOH 1042 A HOH 138 5 HOH HOH 1043 A HOH 139 5 HOH HOH 1044 A HOH 140 5 HOH HOH 1045 A HOH 141 5 HOH HOH 1046 A HOH 142 5 HOH HOH 1047 A HOH 143 5 HOH HOH 1048 A HOH 144 5 HOH HOH 1049 A HOH 145 5 HOH HOH 1050 A HOH 146 5 HOH HOH 1051 A HOH 147 5 HOH HOH 1052 A HOH 148 5 HOH HOH 1053 A HOH 149 5 HOH HOH 1054 A HOH 150 5 HOH HOH 1055 A HOH 151 5 HOH HOH 1056 A HOH 152 5 HOH HOH 1057 A HOH 153 5 HOH HOH 1058 A HOH 154 5 HOH HOH 1059 A HOH 155 5 HOH HOH 1060 A HOH 156 5 HOH HOH 1061 A HOH 157 5 HOH HOH 1062 A HOH 158 5 HOH HOH 1063 A HOH 159 5 HOH HOH 1064 A HOH 160 5 HOH HOH 1065 A HOH 161 5 HOH HOH 1066 A HOH 162 5 HOH HOH 1067 A HOH 163 5 HOH HOH 1068 A HOH 164 5 HOH HOH 1069 A HOH 165 5 HOH HOH 1070 A HOH 166 5 HOH HOH 1071 A HOH 167 5 HOH HOH 1072 A HOH 168 5 HOH HOH 1073 A HOH 169 5 HOH HOH 1074 A HOH 170 5 HOH HOH 1075 A HOH 171 5 HOH HOH 1076 A HOH 172 5 HOH HOH 1077 A HOH 173 5 HOH HOH 1078 A HOH 174 5 HOH HOH 1079 A HOH 175 5 HOH HOH 1080 A HOH 176 5 HOH HOH 1081 A HOH 177 5 HOH HOH 1082 A HOH 178 5 HOH HOH 1083 A HOH 179 5 HOH HOH 1084 A HOH 180 5 HOH HOH 1085 A HOH 181 5 HOH HOH 1086 A HOH 182 5 HOH HOH 1087 A HOH 183 5 HOH HOH 1088 A HOH 184 5 HOH HOH 1089 A HOH 185 5 HOH HOH 1090 A HOH 186 5 HOH HOH 1091 A HOH 187 5 HOH HOH 1092 A HOH 188 5 HOH HOH 1093 A HOH 189 5 HOH HOH 1094 A HOH 190 5 HOH HOH 1095 A HOH 191 5 HOH HOH 1096 A HOH 192 5 HOH HOH 1097 A HOH 193 5 HOH HOH 1098 A HOH 194 5 HOH HOH 1099 A HOH 195 5 HOH HOH 1100 A HOH 196 5 HOH HOH 1101 A HOH 197 5 HOH HOH 1102 A HOH 198 5 HOH HOH 1103 A HOH 199 5 HOH HOH 1104 A HOH 200 5 HOH HOH 1105 A HOH 201 5 HOH HOH 1106 A HOH 202 5 HOH HOH 1107 A HOH 203 5 HOH HOH 1108 A HOH 204 5 HOH HOH 1109 A HOH 205 5 HOH HOH 1110 A HOH 206 5 HOH HOH 1111 A HOH 207 5 HOH HOH 1112 A HOH 208 5 HOH HOH 1113 A HOH 209 5 HOH HOH 1114 A HOH 210 5 HOH HOH 1115 A HOH 211 5 HOH HOH 1116 A HOH 212 5 HOH HOH 1117 A HOH 213 5 HOH HOH 1118 A HOH 214 5 HOH HOH 1119 A HOH 215 5 HOH HOH 1120 A HOH 216 5 HOH HOH 1121 A HOH 217 5 HOH HOH 1122 A HOH 218 5 HOH HOH 1123 A HOH 219 5 HOH HOH 1124 A HOH 220 5 HOH HOH 1125 A HOH 221 5 HOH HOH 1126 A HOH 222 5 HOH HOH 1127 A HOH 223 5 HOH HOH 1128 A HOH 224 5 HOH HOH 1129 A HOH 225 5 HOH HOH 1130 A HOH 226 5 HOH HOH 1131 A HOH 227 5 HOH HOH 1132 A HOH 228 5 HOH HOH 1133 A HOH 229 5 HOH HOH 1134 A HOH 230 5 HOH HOH 1135 A HOH 231 5 HOH HOH 1136 A HOH 232 5 HOH HOH 1137 A HOH 233 5 HOH HOH 1138 A HOH 234 5 HOH HOH 1139 A HOH 235 5 HOH HOH 1140 A HOH 236 5 HOH HOH 1141 A HOH 237 5 HOH HOH 1142 A HOH 238 5 HOH HOH 1143 A HOH 239 5 HOH HOH 1144 A HOH 240 5 HOH HOH 1145 A MET 1 n 1 MET 1 A ASN 2 n 2 ASN 2 A ILE 3 n 3 ILE 3 A PHE 4 n 4 PHE 4 A GLU 5 n 5 GLU 5 A MET 6 n 6 MET 6 A LEU 7 n 7 LEU 7 A ARG 8 n 8 ARG 8 A ILE 9 n 9 ILE 9 A ASP 10 n 10 ASP 10 A GLU 11 n 11 GLU 11 A GLY 12 n 12 GLY 12 A LEU 13 n 13 LEU 13 A ARG 14 n 14 ARG 14 A LEU 15 n 15 LEU 15 A LYS 16 n 16 LYS 16 A ILE 17 n 17 ILE 17 A TYR 18 n 18 TYR 18 A LYS 19 n 19 LYS 19 A ASP 20 n 20 ASP 20 A THR 21 n 21 THR 21 A GLU 22 n 22 GLU 22 A GLY 23 n 23 GLY 23 A TYR 24 n 24 TYR 24 A TYR 25 n 25 TYR 25 A THR 26 n 26 THR 26 A ILE 27 n 27 ILE 27 A GLY 28 n 28 GLY 28 A ILE 29 n 29 ILE 29 A GLY 30 n 30 GLY 30 A HIS 31 n 31 HIS 31 A LEU 32 n 32 LEU 32 A LEU 33 n 33 LEU 33 A THR 34 n 34 THR 34 A LYS 35 n 35 LYS 35 A SER 36 n 36 SER 36 A PRO 37 n 37 PRO 37 A SER 38 n 38 SER 38 A LEU 39 n 39 LEU 39 A ASN 40 n 40 ASN 40 A ALA 41 n 41 ALA 41 A ALA 42 n 42 ALA 42 A LYS 43 n 43 LYS 43 A SER 44 n 44 SER 44 A GLU 45 n 45 GLU 45 A LEU 46 n 46 LEU 46 A ASP 47 n 47 ASP 47 A LYS 48 n 48 LYS 48 A ALA 49 n 49 ALA 49 A ILE 50 n 50 ILE 50 A GLY 51 n 51 GLY 51 A ARG 52 n 52 ARG 52 A ASN 53 n 53 ASN 53 A THR 54 n 54 THR 54 A ASN 55 n 55 ASN 55 A GLY 56 n 56 GLY 56 A VAL 57 n 57 VAL 57 A ILE 58 n 58 ILE 58 A THR 59 n 59 THR 59 A LYS 60 n 60 LYS 60 A ASP 61 n 61 ASP 61 A GLU 62 n 62 GLU 62 A ALA 63 n 63 ALA 63 A GLU 64 n 64 GLU 64 A LYS 65 n 65 LYS 65 A LEU 66 n 66 LEU 66 A PHE 67 n 67 PHE 67 A ASN 68 n 68 ASN 68 A GLN 69 n 69 GLN 69 A ASP 70 n 70 ASP 70 A VAL 71 n 71 VAL 71 A ASP 72 n 72 ASP 72 A ALA 73 n 73 ALA 73 A ALA 74 n 74 ALA 74 A VAL 75 n 75 VAL 75 A ARG 76 n 76 ARG 76 A GLY 77 n 77 GLY 77 A ILE 78 n 78 ILE 78 A LEU 79 n 79 LEU 79 A ARG 80 n 80 ARG 80 A ASN 81 n 81 ASN 81 A ALA 82 n 82 ALA 82 A LYS 83 n 83 LYS 83 A LEU 84 n 84 LEU 84 A LYS 85 n 85 LYS 85 A PRO 86 n 86 PRO 86 A VAL 87 n 87 VAL 87 A TYR 88 n 88 TYR 88 A ASP 89 n 89 ASP 89 A SER 90 n 90 SER 90 A LEU 91 n 91 LEU 91 A ASP 92 n 92 ASP 92 A ALA 93 n 93 ALA 93 A VAL 94 n 94 VAL 94 A ARG 95 n 95 ARG 95 A ARG 96 n 96 ARG 96 A ALA 97 n 97 ALA 97 A ALA 98 n 98 ALA 98 A ALA 99 n 99 ALA 99 A ILE 100 n 100 ILE 100 A ASN 101 n 101 ASN 101 A MET 102 n 102 MET 102 A VAL 103 n 103 VAL 103 A PHE 104 n 104 PHE 104 A GLN 105 n 105 GLN 105 A MET 106 n 106 MET 106 A GLY 107 n 107 GLY 107 A GLU 108 n 108 GLU 108 A THR 109 n 109 THR 109 A GLY 110 n 110 GLY 110 A VAL 111 n 111 VAL 111 A ALA 112 n 112 ALA 112 A GLY 113 n 113 GLY 113 A PHE 114 n 114 PHE 114 A THR 115 n 115 THR 115 A ASN 116 n 116 ASN 116 A SER 117 n 117 SER 117 A LEU 118 n 118 LEU 118 A ARG 119 n 119 ARG 119 A MET 120 n 120 MET 120 A LEU 121 n 121 LEU 121 A GLN 122 n 122 GLN 122 A GLN 123 n 123 GLN 123 A LYS 124 n 124 LYS 124 A ARG 125 n 125 ARG 125 A TRP 126 n 126 TRP 126 A ASP 127 n 127 ASP 127 A GLU 128 n 128 GLU 128 A ALA 129 n 129 ALA 129 A ALA 130 n 130 ALA 130 A VAL 131 n 131 VAL 131 A ASN 132 n 132 ASN 132 A LEU 133 n 133 LEU 133 A ALA 134 n 134 ALA 134 A LYS 135 n 135 LYS 135 A SER 136 n 136 SER 136 A ARG 137 n 137 ARG 137 A TRP 138 n 138 TRP 138 A TYR 139 n 139 TYR 139 A ASN 140 n 140 ASN 140 A GLN 141 n 141 GLN 141 A THR 142 n 142 THR 142 A PRO 143 n 143 PRO 143 A ASN 144 n 144 ASN 144 A ARG 145 n 145 ARG 145 A ALA 146 n 146 ALA 146 A LYS 147 n 147 LYS 147 A ARG 148 n 148 ARG 148 A VAL 149 n 149 VAL 149 A ILE 150 n 150 ILE 150 A THR 151 n 151 THR 151 A THR 152 n 152 THR 152 A PHE 153 n 153 PHE 153 A ARG 154 n 154 ARG 154 A THR 155 n 155 THR 155 A GLY 156 n 156 GLY 156 A THR 157 n 157 THR 157 A TRP 158 n 158 TRP 158 A ASP 159 n 159 ASP 159 A ALA 160 n 160 ALA 160 A TYR 161 n 161 TYR 161 A LYS 162 n 162 LYS 162 A ASN 163 n 163 ASN 163 A LEU 164 n 164 LEU 164 A author_and_software_defined_assembly PISA 1 monomeric 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 TYR 18 A N TYR 18 A O THR 26 A O THR 26 A N ILE 27 A N ILE 27 A O HIS 31 A O HIS 31 1 A ILE 29 -104.18 74.34 17.442 0.04 0.02 0.00 0.04 0.00 -0.06 0.949 0.927 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.22143 0.18383 0.18578 1.80 45.69 945 17524 5.1 97.83 2.319 0.074 RANDOM 1 THROUGHOUT MOLECULAR REPLACEMENT 0.130 0.124 0.80 0.80 1.20 PDB entry 3DMV MAXIMUM LIKELIHOOD MASK 1.80 45.69 245 1623 50 0 1328 0.009 0.022 1398 0.974 1.988 1886 4.772 5.000 170 31.503 23.281 64 12.428 15.000 257 14.993 15.000 14 0.062 0.200 203 0.003 0.020 1037 0.198 0.200 664 0.291 0.200 947 0.106 0.200 171 0.157 0.200 43 0.059 0.200 19 0.506 1.500 865 0.811 2.000 1325 1.255 3.000 663 1.975 4.500 557 0.418 0.283 1.848 58 989 20 90.03 1.80 53 3DN6 18504 2.0 2.0 1 98.2 1.80 1.86 96.4 refinement REFMAC 5.2.0019 data collection HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing AMoRE 1,3,5-trifluoro-2,4,6-trichlorobenzene binding in the hydrophobic cavity of T4 lysozyme L99A mutant 1 N N 2 N N 2 N N 3 N N 4 N N 4 N N 5 N N A ASN 2 A ASN 2 HELX_P A GLY 12 A GLY 12 1 1 11 A SER 38 A SER 38 HELX_P A GLY 51 A GLY 51 1 2 14 A THR 59 A THR 59 HELX_P A ASN 81 A ASN 81 1 3 23 A LEU 84 A LEU 84 HELX_P A LEU 91 A LEU 91 1 4 8 A ASP 92 A ASP 92 HELX_P A VAL 111 A VAL 111 1 5 20 A PHE 114 A PHE 114 HELX_P A GLN 123 A GLN 123 1 6 10 A ARG 125 A ARG 125 HELX_P A ALA 134 A ALA 134 1 7 10 A SER 136 A SER 136 HELX_P A THR 142 A THR 142 1 8 7 A THR 142 A THR 142 HELX_P A GLY 156 A GLY 156 1 9 15 A TRP 158 A TRP 158 HELX_P A ASN 163 A ASN 163 1 10 6 HYDROLASE T4 lysozyme, halogen bond, hydrophobic cavity, halogenated benzene, Antimicrobial, Bacteriolytic enzyme, Glycosidase, Hydrolase LYS_BPT4 UNP 1 1 P00720 MNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKAIGRNCNGVITKDEAEKLFNQDVDAAVRGILR NAKLKPVYDSLDAVRRCALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPNRAKRVITTFRTGTWDA YKNL 1 164 3DN6 1 164 P00720 A 1 1 164 1 CYS engineered mutation THR 54 3DN6 A P00720 UNP 54 54 1 CYS engineered mutation ALA 97 3DN6 A P00720 UNP 97 97 1 LEU engineered mutation ALA 99 3DN6 A P00720 UNP 99 99 3 anti-parallel anti-parallel A ARG 14 A ARG 14 A LYS 19 A LYS 19 A TYR 25 A TYR 25 A GLY 28 A GLY 28 A HIS 31 A HIS 31 A LEU 32 A LEU 32 BINDING SITE FOR RESIDUE PO4 A 901 A PO4 901 Software 9 BINDING SITE FOR RESIDUE PO4 A 902 A PO4 902 Software 7 BINDING SITE FOR RESIDUE F3B A 900 A F3B 900 Software 9 BINDING SITE FOR RESIDUE HED A 904 A HED 904 Software 7 BINDING SITE FOR RESIDUE HED A 905 A HED 905 Software 7 A ARG 14 A ARG 14 9 4_545 A LYS 19 A LYS 19 9 4_545 A ARG 125 A ARG 125 9 1_555 A TRP 126 A TRP 126 9 1_555 A ASP 127 A ASP 127 9 1_555 A GLU 128 A GLU 128 9 1_555 A HOH 1045 G HOH 9 1_555 A HOH 1077 G HOH 9 4_545 A HOH 1091 G HOH 9 1_555 A GLN 122 A GLN 122 7 4_655 A ASN 144 A ASN 144 7 1_555 A ARG 148 A ARG 148 7 1_555 A HOH 912 G HOH 7 1_555 A HOH 1009 G HOH 7 1_555 A HOH 1011 G HOH 7 1_555 A HOH 1035 G HOH 7 1_555 A ILE 78 A ILE 78 9 1_555 A LEU 84 A LEU 84 9 1_555 A TYR 88 A TYR 88 9 1_555 A LEU 91 A LEU 91 9 1_555 A ALA 99 A ALA 99 9 1_555 A MET 102 A MET 102 9 1_555 A LEU 118 A LEU 118 9 1_555 A LEU 121 A LEU 121 9 1_555 A PHE 153 A PHE 153 9 1_555 A ASN 68 A ASN 68 7 5_555 A ASP 72 A ASP 72 7 5_555 A ARG 76 A ARG 76 7 5_555 A ALA 93 A ALA 93 7 1_555 A ARG 96 A ARG 96 7 1_555 A ILE 100 A ILE 100 7 1_555 A HOH 1024 G HOH 7 5_555 A GLY 30 A GLY 30 7 1_555 A HIS 31 A HIS 31 7 1_555 A LEU 32 A LEU 32 7 1_555 A ASP 70 A ASP 70 7 1_555 A PHE 104 A PHE 104 7 1_555 A HOH 911 G HOH 7 1_555 A HOH 1008 G HOH 7 1_555 154 P 32 2 1