0.022222 0.000000 0.000000 0.000000 0.009588 0.000000 0.000000 0.000000 0.019685 0.000000 0.000000 0.000000 RESIDUE 152 IS A CIS PROLINE. SOME COORDINATES WERE AFFECTED BY THE BINDING OF THE INHIBITOR. Drenth, J. Kalk, K.H. Swen, H.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 45.000 104.300 50.800 C H3 Cl 50.488 chloromethane Chloro Methyl group non-polymer C2 H4 O 44.053 ACETYL GROUP 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 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 N 1 N C N 2 N CL N 3 N H N 4 N H N 5 N H N 6 N C N 7 N O N 8 N C N 9 N H N 10 N H N 11 N H N 12 N H N 13 N N N 14 S C N 15 N C N 16 N O N 17 N C N 18 N O N 19 N H N 20 N H N 21 N H N 22 N H N 23 N H N 24 N H N 25 N H N 26 N N N 27 S C N 28 N C N 29 N O N 30 N C N 31 N C N 32 N C N 33 N N N 34 N C N 35 N N N 36 N N N 37 N O 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 H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N N N 54 S C N 55 N C N 56 N O N 57 N C N 58 N C N 59 N O N 60 N N N 61 N O N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N N N 71 S C N 72 N C N 73 N O N 74 N C N 75 N C N 76 N O N 77 N O N 78 N O 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 N N 87 R C N 88 N C N 89 N O N 90 N C N 91 N S N 92 N O N 93 N H N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H 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 N N 150 S C N 151 N C N 152 N O N 153 N C Y 154 N C Y 155 N N Y 156 N C Y 157 N C Y 158 N N N 159 N O 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 H N 168 N H N 169 N H N 170 N O N 171 N H N 172 N H N 173 N N N 174 S C N 175 N C N 176 N O N 177 S C N 178 N C N 179 N C N 180 N C N 181 N O 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 H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N N N 196 S C N 197 N C N 198 N O N 199 N C N 200 N C N 201 N C N 202 N C N 203 N O 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 H N 214 N H N 215 N H N 216 N H N 217 N N N 218 S C N 219 N C N 220 N O N 221 N C N 222 N C N 223 N C N 224 N C N 225 N N N 226 N O 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 H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N N N 243 S C N 244 N C N 245 N O N 246 N C Y 247 N C Y 248 N C Y 249 N C Y 250 N C Y 251 N C Y 252 N C N 253 N O 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 H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N N N 266 S C N 267 N C N 268 N O N 269 N C N 270 N C N 271 N C N 272 N O 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 H N 281 N H N 282 N N N 283 S C N 284 N C N 285 N O N 286 N C N 287 N O N 288 N O 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 N N 297 S C N 298 N C N 299 N O N 300 R C N 301 N O N 302 N C N 303 N O N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 N H N 310 N H N 311 N H N 312 N H N 313 N N N 314 S C N 315 N C N 316 N O N 317 N C Y 318 N C Y 319 N C Y 320 N C Y 321 N N Y 322 N C Y 323 N C Y 324 N C Y 325 N C Y 326 N C N 327 N O N 328 N H N 329 N H N 330 N H N 331 N H 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 H N 340 N N N 341 S C N 342 N C N 343 N O N 344 N C Y 345 N C Y 346 N C Y 347 N C Y 348 N C Y 349 N C Y 350 N C N 351 N O N 352 N O N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H 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 N N 365 S C N 366 N C N 367 N O N 368 N C N 369 N C N 370 N C N 371 N O 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 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N doub 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 sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N doub N 18 N sing N 19 N sing 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 doub 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 doub 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 doub 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 sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub 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 N 84 N sing N 85 N sing N 86 N doub 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 sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N doub 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 doub N 108 N sing N 109 N sing 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 doub N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub 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 doub N 137 N sing 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 Y 150 N sing Y 151 N doub Y 152 N doub N 153 N sing Y 154 N sing N 155 N sing Y 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 sing N 165 N sing N 166 N sing N 167 N sing N 168 N doub N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing 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 sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N doub 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 sing N 209 N sing N 210 N doub 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 sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N doub N 235 N sing N 236 N sing N 237 N sing N 238 N sing Y 239 N doub Y 240 N sing Y 241 N sing N 242 N sing Y 243 N doub N 244 N sing Y 245 N doub N 246 N sing Y 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 sing N 254 N sing N 255 N sing N 256 N sing N 257 N doub 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 sing N 273 N sing N 274 N doub 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 doub 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 doub N 304 N sing N 305 N sing N 306 N sing N 307 N sing Y 308 N doub Y 309 N sing Y 310 N sing N 311 N sing Y 312 N doub Y 313 N sing Y 314 N sing N 315 N sing Y 316 N sing Y 317 N doub N 318 N sing Y 319 N doub N 320 N sing Y 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 sing N 330 N sing N 331 N doub N 332 N sing N 333 N sing N 334 N sing N 335 N sing Y 336 N doub Y 337 N sing Y 338 N sing N 339 N sing Y 340 N doub N 341 N sing Y 342 N doub N 343 N sing Y 344 N sing 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 doub N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N sing US Biochemistry BICHAW 0033 0006-2960 15 3731 3738 10.1021/bi00662a014 952885 Binding of chloromethyl ketone substrate analogues to crystalline papain. 1976 US Adv.Protein Chem. APCHA2 0433 0065-3233 25 79 The Structure of Papain 1971 UK Philos.Trans.R.Soc.London,Ser.B PTRBAE 0441 0080-4622 257 231 The Structure of the Papain Molecule 1970 UK Nature NATUAS 0006 0028-0836 218 929 Structure of Papain 1968 Tracor Jitco Inc.,Rockville,Md. Atlas of Macromolecular Structure on Microfiche 0434 0-917934-01-6 250 1976 National Biomedical Research Foundation, Silver Spring,Md. Atlas of Protein Sequence and Structure (Data Section) 0435 0-912466-02-2 5 121 1972 1 2 10.2210/pdb1pad/pdb pdb_00001pad CLOSE CONTACTS BETWEEN SYMMETRY RELATED RESIDUES 1.000000 0.000000 0.000000 0.000000 -0.999983 -0.012521 0.000000 0.012551 -0.999923 -12.040000 99.435603 37.195059 1 x-ray 1 1.0 23449.346 PAPAIN 3.4.22.2 1 man polymer 436.933 ACETYL-ALA-ALA-PHE-ALA-CHLOROMETHYLKETONE INHIBITOR 1 syn polymer 18.015 water 32 nat water ACAAPACK no no IPEYVDWRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTGNLNQYSEQELLDCDRRSYGCNGGYPWSALQLVAQYGI HYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQGALLYSIANQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVDHA VAAVGYGPNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPVKN IPEYVDWRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTGNLNQYSEQELLDCDRRSYGCNGGYPWSALQLVAQYGI HYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQGALLYSIANQPVSVVLQAAGKDFQLYRGGIFVGPCGNKVDHA VAAVGYGPNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPVKN A polypeptide(L) no yes (ACE)AAFA(0QE) XAAFAX I 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 papaya FRUIT LATEX sample 3649 Carica papaya 2.50 50.76 pdbx_database_status struct_conf struct_conf_type atom_site atom_sites chem_comp_atom chem_comp_bond database_2 database_PDB_matrix pdbx_database_remark pdbx_validate_close_contact pdbx_validate_rmsd_angle pdbx_validate_rmsd_bond pdbx_validate_symm_contact pdbx_validate_torsion struct_conn struct_ref_seq_dif repository Initial release Coordinates and associated ncs operations (if present) transformed into standard crystal frame repository Remediation Version format compliance Advisory Atomic model Database references Derived calculations Non-polymer description Structure summary Version format compliance Other Derived calculations Other Advisory Atomic model Data collection Database references Derived calculations Other 1 0 1977-04-12 1 1 2008-03-24 1 2 2011-07-13 1 3 2012-12-12 1 4 2017-11-29 2 0 2023-09-27 _pdbx_database_status.process_site _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_sites.fract_transf_matrix[2][2] _atom_sites.fract_transf_matrix[2][3] _atom_sites.fract_transf_matrix[3][2] _atom_sites.fract_transf_matrix[3][3] _atom_sites.fract_transf_vector[1] _atom_sites.fract_transf_vector[2] _atom_sites.fract_transf_vector[3] _database_2.pdbx_DOI _database_2.pdbx_database_accession _database_PDB_matrix.origx[2][2] _database_PDB_matrix.origx[2][3] _database_PDB_matrix.origx[3][2] _database_PDB_matrix.origx[3][3] _database_PDB_matrix.origx_vector[1] _database_PDB_matrix.origx_vector[2] _database_PDB_matrix.origx_vector[3] _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.dist _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_ref_seq_dif.details 1977-04-12 SPRSDE SHEET THE SHEET SUBSTRUCTURE OF THIS MOLECULE IS DOUBLY BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. STRANDS 4,5,6 OF S1A ARE IDENTICAL TO STRANDS 2,3,4 OF S1B. Y BNL 1976-11-01 REL HOH water Inhibitor Acetyl-L-alanyl-L-alanyl-L-phenylalanyl-L-alanine chloromethyl ketone, AcAAPACK Peptide-like HOH 213 3 HOH HOH 213 A HOH 214 3 HOH HOH 214 A HOH 215 3 HOH HOH 215 A HOH 216 3 HOH HOH 216 A HOH 217 3 HOH HOH 217 A HOH 218 3 HOH HOH 218 A HOH 219 3 HOH HOH 219 A HOH 220 3 HOH HOH 220 A HOH 221 3 HOH HOH 221 A HOH 222 3 HOH HOH 222 A HOH 223 3 HOH HOH 223 A HOH 224 3 HOH HOH 224 A HOH 225 3 HOH HOH 225 A HOH 226 3 HOH HOH 226 A HOH 227 3 HOH HOH 227 A HOH 228 3 HOH HOH 228 A HOH 229 3 HOH HOH 229 A HOH 230 3 HOH HOH 230 A HOH 231 3 HOH HOH 231 A HOH 232 3 HOH HOH 232 A HOH 233 3 HOH HOH 233 A HOH 234 3 HOH HOH 234 A HOH 235 3 HOH HOH 235 A HOH 236 3 HOH HOH 236 A HOH 237 3 HOH HOH 237 A HOH 238 3 HOH HOH 238 A HOH 239 3 HOH HOH 239 A HOH 240 3 HOH HOH 240 A HOH 241 3 HOH HOH 241 A HOH 242 3 HOH HOH 242 A HOH 243 3 HOH HOH 243 A HOH 31 3 HOH HOH 31 I ILE 1 n 1 ILE 1 A PRO 2 n 2 PRO 2 A GLU 3 n 3 GLU 3 A TYR 4 n 4 TYR 4 A VAL 5 n 5 VAL 5 A ASP 6 n 6 ASP 6 A TRP 7 n 7 TRP 7 A ARG 8 n 8 ARG 8 A GLN 9 n 9 GLN 9 A LYS 10 n 10 LYS 10 A GLY 11 n 11 GLY 11 A ALA 12 n 12 ALA 12 A VAL 13 n 13 VAL 13 A THR 14 n 14 THR 14 A PRO 15 n 15 PRO 15 A VAL 16 n 16 VAL 16 A LYS 17 n 17 LYS 17 A ASN 18 n 18 ASN 18 A GLN 19 n 19 GLN 19 A GLY 20 n 20 GLY 20 A SER 21 n 21 SER 21 A CYS 22 n 22 CYS 22 A GLY 23 n 23 GLY 23 A SER 24 n 24 SER 24 A CYS 25 n 25 CYS 25 A TRP 26 n 26 TRP 26 A ALA 27 n 27 ALA 27 A PHE 28 n 28 PHE 28 A SER 29 n 29 SER 29 A ALA 30 n 30 ALA 30 A VAL 31 n 31 VAL 31 A VAL 32 n 32 VAL 32 A THR 33 n 33 THR 33 A ILE 34 n 34 ILE 34 A GLU 35 n 35 GLU 35 A GLY 36 n 36 GLY 36 A ILE 37 n 37 ILE 37 A ILE 38 n 38 ILE 38 A LYS 39 n 39 LYS 39 A ILE 40 n 40 ILE 40 A ARG 41 n 41 ARG 41 A THR 42 n 42 THR 42 A GLY 43 n 43 GLY 43 A ASN 44 n 44 ASN 44 A LEU 45 n 45 LEU 45 A ASN 46 n 46 ASN 46 A GLN 47 n 47 GLN 47 A TYR 48 n 48 TYR 48 A SER 49 n 49 SER 49 A GLU 50 n 50 GLU 50 A GLN 51 n 51 GLN 51 A GLU 52 n 52 GLU 52 A LEU 53 n 53 LEU 53 A LEU 54 n 54 LEU 54 A ASP 55 n 55 ASP 55 A CYS 56 n 56 CYS 56 A ASP 57 n 57 ASP 57 A ARG 58 n 58 ARG 58 A ARG 59 n 59 ARG 59 A SER 60 n 60 SER 60 A TYR 61 n 61 TYR 61 A GLY 62 n 62 GLY 62 A CYS 63 n 63 CYS 63 A ASN 64 n 64 ASN 64 A GLY 65 n 65 GLY 65 A GLY 66 n 66 GLY 66 A TYR 67 n 67 TYR 67 A PRO 68 n 68 PRO 68 A TRP 69 n 69 TRP 69 A SER 70 n 70 SER 70 A ALA 71 n 71 ALA 71 A LEU 72 n 72 LEU 72 A GLN 73 n 73 GLN 73 A LEU 74 n 74 LEU 74 A VAL 75 n 75 VAL 75 A ALA 76 n 76 ALA 76 A GLN 77 n 77 GLN 77 A TYR 78 n 78 TYR 78 A GLY 79 n 79 GLY 79 A ILE 80 n 80 ILE 80 A HIS 81 n 81 HIS 81 A TYR 82 n 82 TYR 82 A ARG 83 n 83 ARG 83 A ASN 84 n 84 ASN 84 A THR 85 n 85 THR 85 A TYR 86 n 86 TYR 86 A PRO 87 n 87 PRO 87 A TYR 88 n 88 TYR 88 A GLU 89 n 89 GLU 89 A GLY 90 n 90 GLY 90 A VAL 91 n 91 VAL 91 A GLN 92 n 92 GLN 92 A ARG 93 n 93 ARG 93 A TYR 94 n 94 TYR 94 A CYS 95 n 95 CYS 95 A ARG 96 n 96 ARG 96 A SER 97 n 97 SER 97 A ARG 98 n 98 ARG 98 A GLU 99 n 99 GLU 99 A LYS 100 n 100 LYS 100 A GLY 101 n 101 GLY 101 A PRO 102 n 102 PRO 102 A TYR 103 n 103 TYR 103 A ALA 104 n 104 ALA 104 A ALA 105 n 105 ALA 105 A LYS 106 n 106 LYS 106 A THR 107 n 107 THR 107 A ASP 108 n 108 ASP 108 A GLY 109 n 109 GLY 109 A VAL 110 n 110 VAL 110 A ARG 111 n 111 ARG 111 A GLN 112 n 112 GLN 112 A VAL 113 n 113 VAL 113 A GLN 114 n 114 GLN 114 A PRO 115 n 115 PRO 115 A TYR 116 n 116 TYR 116 A ASN 117 n 117 ASN 117 A GLN 118 n 118 GLN 118 A GLY 119 n 119 GLY 119 A ALA 120 n 120 ALA 120 A LEU 121 n 121 LEU 121 A LEU 122 n 122 LEU 122 A TYR 123 n 123 TYR 123 A SER 124 n 124 SER 124 A ILE 125 n 125 ILE 125 A ALA 126 n 126 ALA 126 A ASN 127 n 127 ASN 127 A GLN 128 n 128 GLN 128 A PRO 129 n 129 PRO 129 A VAL 130 n 130 VAL 130 A SER 131 n 131 SER 131 A VAL 132 n 132 VAL 132 A VAL 133 n 133 VAL 133 A LEU 134 n 134 LEU 134 A GLN 135 n 135 GLN 135 A ALA 136 n 136 ALA 136 A ALA 137 n 137 ALA 137 A GLY 138 n 138 GLY 138 A LYS 139 n 139 LYS 139 A ASP 140 n 140 ASP 140 A PHE 141 n 141 PHE 141 A GLN 142 n 142 GLN 142 A LEU 143 n 143 LEU 143 A TYR 144 n 144 TYR 144 A ARG 145 n 145 ARG 145 A GLY 146 n 146 GLY 146 A GLY 147 n 147 GLY 147 A ILE 148 n 148 ILE 148 A PHE 149 n 149 PHE 149 A VAL 150 n 150 VAL 150 A GLY 151 n 151 GLY 151 A PRO 152 n 152 PRO 152 A CYS 153 n 153 CYS 153 A GLY 154 n 154 GLY 154 A ASN 155 n 155 ASN 155 A LYS 156 n 156 LYS 156 A VAL 157 n 157 VAL 157 A ASP 158 n 158 ASP 158 A HIS 159 n 159 HIS 159 A ALA 160 n 160 ALA 160 A VAL 161 n 161 VAL 161 A ALA 162 n 162 ALA 162 A ALA 163 n 163 ALA 163 A VAL 164 n 164 VAL 164 A GLY 165 n 165 GLY 165 A TYR 166 n 166 TYR 166 A GLY 167 n 167 GLY 167 A PRO 168 n 168 PRO 168 A ASN 169 n 169 ASN 169 A TYR 170 n 170 TYR 170 A ILE 171 n 171 ILE 171 A LEU 172 n 172 LEU 172 A ILE 173 n 173 ILE 173 A LYS 174 n 174 LYS 174 A ASN 175 n 175 ASN 175 A SER 176 n 176 SER 176 A TRP 177 n 177 TRP 177 A GLY 178 n 178 GLY 178 A THR 179 n 179 THR 179 A GLY 180 n 180 GLY 180 A TRP 181 n 181 TRP 181 A GLY 182 n 182 GLY 182 A GLU 183 n 183 GLU 183 A ASN 184 n 184 ASN 184 A GLY 185 n 185 GLY 185 A TYR 186 n 186 TYR 186 A ILE 187 n 187 ILE 187 A ARG 188 n 188 ARG 188 A ILE 189 n 189 ILE 189 A LYS 190 n 190 LYS 190 A ARG 191 n 191 ARG 191 A GLY 192 n 192 GLY 192 A THR 193 n 193 THR 193 A GLY 194 n 194 GLY 194 A ASN 195 n 195 ASN 195 A SER 196 n 196 SER 196 A TYR 197 n 197 TYR 197 A GLY 198 n 198 GLY 198 A VAL 199 n 199 VAL 199 A CYS 200 n 200 CYS 200 A GLY 201 n 201 GLY 201 A LEU 202 n 202 LEU 202 A TYR 203 n 203 TYR 203 A THR 204 n 204 THR 204 A SER 205 n 205 SER 205 A SER 206 n 206 SER 206 A PHE 207 n 207 PHE 207 A TYR 208 n 208 TYR 208 A PRO 209 n 209 PRO 209 A VAL 210 n 210 VAL 210 A LYS 211 n 211 LYS 211 A ASN 212 n 212 ASN 212 A ACE 1 n 1 ACE 1 I ALA 2 n 2 ALA 2 I ALA 3 n 3 ALA 3 I PHE 4 n 4 PHE 4 I ALA 5 n 5 ALA 5 I 0QE 6 n 6 0QE 6 I author_and_software_defined_assembly PISA 2 dimeric 800 -6 9560 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 O ARG 111 A O ARG 111 A N TYR 208 A N TYR 208 A O PHE 207 A O PHE 207 A N SER 131 A N SER 131 A O VAL 130 A O VAL 130 A N ALA 163 A N ALA 163 A O ALA 162 A O ALA 162 A N LYS 174 A N LYS 174 A O ILE 173 A O ILE 173 A N ILE 187 A N ILE 187 A O TYR 186 A O TYR 186 A N GLU 183 A N GLU 183 A O VAL 5 A O VAL 5 A N TYR 166 A N TYR 166 A O GLY 165 A O GLY 165 A N LEU 172 A N LEU 172 A O ILE 171 A O ILE 171 A N ILE 189 A N ILE 189 A O ARG 188 A O ARG 188 A N PHE 149 A N PHE 149 1 A A OH O TYR HOH 203 237 1.08 1 A A O OH GLN TYR 19 88 1.73 1 A A CZ O TYR HOH 203 237 1.87 1 A A OE1 N GLN GLY 135 154 1.88 1 A A O OG1 ALA THR 30 33 1.90 1 A A O O GLY HOH 11 218 1.99 1 A A CB CE2 GLN PHE 112 207 2.12 1 A A O N ALA GLY 136 138 2.13 1 A ARG 59 0.202 SIDE CHAIN 1 -20.84 2.70 111.00 90.16 A A A N CA C ILE ILE ILE 1 1 1 N 1 6.63 0.90 118.30 124.93 A A A CB CG OD1 ASP ASP ASP 6 6 6 N 1 16.97 1.20 111.50 128.47 A A A CB CA C CYS CYS CYS 25 25 25 N 1 12.83 2.10 120.10 132.93 A A A CA C O CYS CYS CYS 25 25 25 N 1 6.58 0.90 118.30 124.88 A A A CB CG OD1 ASP ASP ASP 55 55 55 N 1 6.51 0.90 118.30 124.81 A A A CB CG OD1 ASP ASP ASP 57 57 57 N 1 6.61 0.90 118.30 124.91 A A A CB CG OD1 ASP ASP ASP 108 108 108 N 1 6.53 0.90 118.30 124.83 A A A CB CG OD1 ASP ASP ASP 140 140 140 N 1 6.59 0.90 118.30 124.89 A A A CB CG OD1 ASP ASP ASP 158 158 158 N 1 17.00 2.70 111.00 128.00 A A A N CA C ASN ASN ASN 169 169 169 N 1 -12.75 2.00 110.40 97.65 A A A CB CA C PHE PHE PHE 207 207 207 N 1 22.36 2.70 111.00 133.36 A A A N CA C PHE PHE PHE 207 207 207 N 1 17.29 2.70 111.00 128.29 A A A N CA C TYR TYR TYR 208 208 208 N 1 -4.50 0.70 120.80 116.30 I I I CB CG CD1 PHE PHE PHE 4 4 4 N 1 A A NE1 CE2 TRP TRP 7 7 -0.096 0.013 1.371 1.275 N 1 A A CG OD1 ASN ASN 18 18 0.155 0.022 1.235 1.390 N 1 A A NE1 CE2 TRP TRP 26 26 -0.095 0.013 1.371 1.276 N 1 A A CG OD1 ASN ASN 44 44 0.154 0.022 1.235 1.389 N 1 A A CG OD1 ASN ASN 46 46 0.154 0.022 1.235 1.389 N 1 A A CG OD1 ASN ASN 64 64 0.155 0.022 1.235 1.390 N 1 A A NE1 CE2 TRP TRP 69 69 -0.096 0.013 1.371 1.275 N 1 A A N CA SER SER 70 70 0.225 0.020 1.459 1.684 N 1 A A CG OD1 ASN ASN 84 84 0.156 0.022 1.235 1.391 N 1 A A CG OD1 ASN ASN 117 117 0.155 0.022 1.235 1.390 N 1 A A CG OD1 ASN ASN 127 127 0.154 0.022 1.235 1.389 N 1 A A CD N PRO PRO 152 152 -0.159 0.014 1.474 1.315 N 1 A A CG OD1 ASN ASN 155 155 0.157 0.022 1.235 1.392 N 1 A A CG OD1 ASN ASN 169 169 0.156 0.022 1.235 1.391 N 1 A A CG OD1 ASN ASN 175 175 0.156 0.022 1.235 1.391 N 1 A A NE1 CE2 TRP TRP 177 177 -0.093 0.013 1.371 1.278 N 1 A A NE1 CE2 TRP TRP 181 181 -0.093 0.013 1.371 1.278 N 1 A A CG OD1 ASN ASN 184 184 0.156 0.022 1.235 1.391 N 1 A A CG OD1 ASN ASN 195 195 0.156 0.022 1.235 1.391 N 1 A A CG OD1 ASN ASN 212 212 0.156 0.022 1.235 1.391 N 1 A A C OXT ASN ASN 212 212 0.150 0.019 1.229 1.379 N 1 I I N CA ALA ALA 3 3 0.150 0.020 1.459 1.609 N 1 I I CA CB ALA ALA 3 3 -0.212 0.021 1.520 1.308 N 1 I I CA C ALA ALA 3 3 0.198 0.026 1.525 1.723 N 1 A A NZ O LYS GLY 139 192 1.08 1_555 2_665 1 A A O NE2 ARG GLN 41 77 1.24 1_555 4_565 1 A A CE1 NH2 TYR ARG 94 145 1.45 1_555 4_466 1 A A CZ NH2 TYR ARG 94 145 1.56 1_555 4_466 1 A A CE O LYS GLY 139 192 1.70 1_555 2_665 1 A A CD1 NH2 TYR ARG 94 145 1.87 1_555 4_466 1 A A NZ C LYS GLY 139 192 1.98 1_555 2_665 1 A A CE2 NH2 TYR ARG 94 145 2.00 1_555 4_466 1 A A CE1 CZ TYR ARG 94 145 2.05 1_555 4_466 1 A PRO 2 -46.65 163.69 1 A PRO 15 -46.61 165.37 1 A SER 21 -75.36 33.02 1 A CYS 25 0.00 -66.65 1 A TYR 61 -109.85 50.47 1 A CYS 63 -65.35 57.68 1 A ASN 64 139.01 67.37 1 A TYR 78 -100.04 -82.78 1 A TYR 86 -176.25 42.85 1 A PRO 87 -46.59 158.65 1 A SER 97 -30.76 -75.46 1 A GLN 114 -53.84 109.43 1 A PRO 115 -46.61 162.78 1 A ASN 117 -163.85 104.17 1 A GLN 128 166.57 142.48 1 A PRO 129 -46.59 166.46 1 A LEU 134 170.51 -179.03 1 A ALA 137 -47.77 -4.38 1 A ASP 158 -169.92 15.08 1 A VAL 161 -141.96 -158.40 1 A GLU 183 -109.34 71.92 1 A ASN 184 73.60 36.96 1 A THR 193 -148.36 -24.77 1 A ASN 195 -52.91 96.14 1 A TYR 208 -177.83 135.08 1 A PRO 209 -46.71 -158.16 THIS DATA SET WAS OBTAINED BY MERGING THE INHIBITOR COORDINATES WITH THE REFINED NATIVE PAPAIN COORDINATES OF SET 8PAP. THE COORDINATES OF THE INHIBITOR WERE NOT REFINED. THE CONFORMATION OF RESIDUE CYS 25 IN THIS DERIVATIVE STRUCTURE IS NOT THE SAME AS THAT IN THE NATIVE ENZYME AND THIS FACT IS REFLECTED IN THE COORDINATES GIVEN BELOW. 2.8 1 2.8 32 1717 0 0 1685 Binding of chloromethyl ketone substrate analogues to crystalline papain 1 N N 2 N N 3 N N 3 N N A SER 24 A SER 24 HELX_P A GLY 43 A GLY 43 1 H1 20 A GLU 50 A GLU 50 HELX_P A ARG 58 A ARG 58 1 H2 9 A TYR 67 A TYR 67 HELX_P A TYR 78 A TYR 78 1 H3 12 A ASN 117 A ASN 117 HELX_P A GLN 128 A GLN 128 1 H4 12 A ALA 137 A ALA 137 HELX_P A LEU 143 A LEU 143 1 H5 7 disulf 2.070 A CYS 22 A SG CYS 22 1_555 A CYS 63 A SG CYS 63 1_555 disulf 1.694 A CYS 56 A SG CYS 56 1_555 A CYS 95 A SG CYS 95 1_555 disulf 2.061 A CYS 153 A SG CYS 153 1_555 A CYS 200 A SG CYS 200 1_555 covale 1.880 one A CYS 25 A SG CYS 25 1_555 I 0QE 6 B C1 0QE 6 1_555 covale 1.263 both I ACE 1 B C ACE 1 1_555 I ALA 2 B N ALA 2 1_555 covale 1.451 both I ALA 5 B C ALA 5 1_555 I 0QE 6 B C1 0QE 6 1_555 HYDROLASE/HYDROLASE INHIBITOR SULFHYDRYL PROTEINASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX A GLY 151 A GLY 151 1 A PRO 152 A PRO 152 -12.60 PAPA_CARPA UNP 1 1 P00784 MAMIPSISKLLFVAICLFVYMGLSFGDFSIVGYSQNDLTSTERLIQLFESWMLKHNKIYKNIDEKIYRFEIFKDNLKYID ETNKKNNSYWLGLNVFADMSNDEFKEKYTGSIAGNYTTTELSYEEVLNDGDVNIPEYVDWRQKGAVTPVKNQGSCGSCWA FSAVVTIEGIIKIRTGNLNEYSEQELLDCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKT DGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVDHAVAAVGYGPNYILIKNSWGTGWGENGYI RIKRGTGNSYGVCGLYTSSFYPVKN 1PAD PDB 2 1PAD 134 345 1PAD 1 212 P00784 A 1 1 212 1 6 1PAD 1 6 1PAD I 2 1 6 1 GLU conflict GLN 47 1PAD A P00784 UNP 180 47 1 GLU conflict GLN 118 1PAD A P00784 UNP 251 118 1 GLU conflict GLN 135 1PAD A P00784 UNP 268 135 7 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel A ARG 111 A ARG 111 A GLN 112 A GLN 112 A SER 206 A SER 206 A TYR 208 A TYR 208 A VAL 130 A VAL 130 A SER 131 A SER 131 A ALA 162 A ALA 162 A GLY 167 A GLY 167 A ASN 169 A ASN 169 A ASN 175 A ASN 175 A GLY 185 A GLY 185 A ARG 191 A ARG 191 A GLU 183 A GLU 183 A GLU 183 A GLU 183 A VAL 5 A VAL 5 A TRP 7 A TRP 7 A ALA 162 A ALA 162 A GLY 167 A GLY 167 A ASN 169 A ASN 169 A ASN 175 A ASN 175 A GLY 185 A GLY 185 A ARG 191 A ARG 191 A PHE 149 A PHE 149 A PHE 149 A PHE 149 BINDING SITE FOR CHAIN I OF ACETYL-ALA-ALA-PHE-ALA-CHLOROMETHYLKETONE INHIBITOR Software 27 A GLY 11 A GLY 11 27 4_456 A ALA 12 A ALA 12 27 4_456 A THR 14 A THR 14 27 4_456 A GLN 19 A GLN 19 27 1_555 A GLY 23 A GLY 23 27 1_555 A SER 24 A SER 24 27 1_555 A CYS 25 A CYS 25 27 1_555 A GLU 35 A GLU 35 27 4_456 A GLY 36 A GLY 36 27 4_456 A LYS 39 A LYS 39 27 4_456 A ASN 44 A ASN 44 27 4_456 A LEU 45 A LEU 45 27 4_456 A ASN 46 A ASN 46 27 4_456 A GLN 47 A GLN 47 27 4_456 A TYR 48 A TYR 48 27 4_456 A TYR 61 A TYR 61 27 1_555 A GLY 65 A GLY 65 27 1_555 A GLY 66 A GLY 66 27 1_555 A TYR 67 A TYR 67 27 1_555 A VAL 133 A VAL 133 27 1_555 A VAL 157 A VAL 157 27 1_555 A ASP 158 A ASP 158 27 1_555 A HIS 159 A HIS 159 27 1_555 A HOH 217 C HOH 27 4_456 A HOH 218 C HOH 27 4_456 A HOH 243 C HOH 27 1_555 I HOH 31 D HOH 27 1_555 19 P 21 21 21