data_5NLP # _model_server_result.job_id ae0tvELw7ilbFcFQZDknsA _model_server_result.datetime_utc '2024-11-15 16:47:27' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5nlp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 5NLP # _exptl.entry_id 5NLP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 63.546 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'COPPER (II) ION' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5NLP _cell.length_a 125.008 _cell.length_b 125.008 _cell.length_c 125.008 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NLP _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 XYP XYP C1 O1 . O4 HO4 . sing 2 ? 2 3 2 XYP XYP C1 O1 . O4 HO4 . sing 3 ? 3 2 1 XYP XYS C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B XYP 1 B 1 XYP B 2 XYP 2 n B XYP 2 B 2 XYP B 3 XYP 2 n B XYP 3 B 3 XYP B 4 XYP 3 n C XYS 1 C 1 XYS D 6 XYS 3 n C XYP 2 C 2 XYP D 7 XYS # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.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.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 41 A CYS 41 1_555 A SG CYS 167 A CYS 167 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.102 ? covale ? covale1 A C HIC 1 A HIC 1 1_555 A N THR 2 A THR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale2 A ND2 ASN 33 A ASN 33 1_555 E C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 B O4 XYP . B XYP 1 1_555 B C1 XYP . B XYP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale4 B O4 XYP . B XYP 2 1_555 B C1 XYP . B XYP 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.528 ? covale ? covale5 C O4 XYS . C XYS 1 1_555 C C1 XYP . C XYP 2 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.454 ? covale ? covale6 C O4 XYS . C XYS 1 1_555 C C1 XYP . C XYP 2 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.453 ? metalc ? metalc1 A N HIC 1 A HIC 1 1_555 D CU CU . A CU 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc2 A ND1 HIC 1 A HIC 1 1_555 D CU CU . A CU 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? metalc ? metalc3 A NE2 HIS 78 A HIS 78 1_555 D CU CU . A CU 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? # _chem_comp.formula 'Cu 2' _chem_comp.formula_weight 63.546 _chem_comp.id CU _chem_comp.mon_nstd_flag . _chem_comp.name 'COPPER (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5NLP _atom_sites.fract_transf_matrix[1][1] 0.007999 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007999 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007999 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code D 4 CU A 1 301 301 CU CU . E 5 NAG A 1 302 401 NAG NAG . F 6 XYP A 1 303 1 XYP XYP . G 7 HOH A 1 401 133 HOH HOH . G 7 HOH A 2 402 144 HOH HOH . G 7 HOH A 3 403 221 HOH HOH . G 7 HOH A 4 404 62 HOH HOH . G 7 HOH A 5 405 192 HOH HOH . G 7 HOH A 6 406 188 HOH HOH . G 7 HOH A 7 407 91 HOH HOH . G 7 HOH A 8 408 225 HOH HOH . G 7 HOH A 9 409 113 HOH HOH . G 7 HOH A 10 410 121 HOH HOH . G 7 HOH A 11 411 167 HOH HOH . G 7 HOH A 12 412 223 HOH HOH . G 7 HOH A 13 413 191 HOH HOH . G 7 HOH A 14 414 195 HOH HOH . G 7 HOH A 15 415 51 HOH HOH . G 7 HOH A 16 416 86 HOH HOH . G 7 HOH A 17 417 48 HOH HOH . G 7 HOH A 18 418 126 HOH HOH . G 7 HOH A 19 419 85 HOH HOH . G 7 HOH A 20 420 154 HOH HOH . G 7 HOH A 21 421 264 HOH HOH . G 7 HOH A 22 422 70 HOH HOH . G 7 HOH A 23 423 41 HOH HOH . G 7 HOH A 24 424 159 HOH HOH . G 7 HOH A 25 425 114 HOH HOH . G 7 HOH A 26 426 73 HOH HOH . G 7 HOH A 27 427 56 HOH HOH . G 7 HOH A 28 428 64 HOH HOH . G 7 HOH A 29 429 32 HOH HOH . G 7 HOH A 30 430 97 HOH HOH . G 7 HOH A 31 431 101 HOH HOH . G 7 HOH A 32 432 179 HOH HOH . G 7 HOH A 33 433 36 HOH HOH . G 7 HOH A 34 434 117 HOH HOH . G 7 HOH A 35 435 33 HOH HOH . G 7 HOH A 36 436 147 HOH HOH . G 7 HOH A 37 437 95 HOH HOH . G 7 HOH A 38 438 59 HOH HOH . G 7 HOH A 39 439 43 HOH HOH . G 7 HOH A 40 440 207 HOH HOH . G 7 HOH A 41 441 235 HOH HOH . G 7 HOH A 42 442 125 HOH HOH . G 7 HOH A 43 443 92 HOH HOH . G 7 HOH A 44 444 261 HOH HOH . G 7 HOH A 45 445 79 HOH HOH . G 7 HOH A 46 446 63 HOH HOH . G 7 HOH A 47 447 94 HOH HOH . G 7 HOH A 48 448 7 HOH HOH . G 7 HOH A 49 449 24 HOH HOH . G 7 HOH A 50 450 88 HOH HOH . G 7 HOH A 51 451 40 HOH HOH . G 7 HOH A 52 452 205 HOH HOH . G 7 HOH A 53 453 58 HOH HOH . G 7 HOH A 54 454 49 HOH HOH . G 7 HOH A 55 455 99 HOH HOH . G 7 HOH A 56 456 19 HOH HOH . G 7 HOH A 57 457 161 HOH HOH . G 7 HOH A 58 458 21 HOH HOH . G 7 HOH A 59 459 13 HOH HOH . G 7 HOH A 60 460 5 HOH HOH . G 7 HOH A 61 461 27 HOH HOH . G 7 HOH A 62 462 123 HOH HOH . G 7 HOH A 63 463 112 HOH HOH . G 7 HOH A 64 464 74 HOH HOH . G 7 HOH A 65 465 10 HOH HOH . G 7 HOH A 66 466 28 HOH HOH . G 7 HOH A 67 467 52 HOH HOH . G 7 HOH A 68 468 183 HOH HOH . G 7 HOH A 69 469 15 HOH HOH . G 7 HOH A 70 470 23 HOH HOH . G 7 HOH A 71 471 100 HOH HOH . G 7 HOH A 72 472 22 HOH HOH . G 7 HOH A 73 473 119 HOH HOH . G 7 HOH A 74 474 20 HOH HOH . G 7 HOH A 75 475 34 HOH HOH . G 7 HOH A 76 476 134 HOH HOH . G 7 HOH A 77 477 26 HOH HOH . G 7 HOH A 78 478 124 HOH HOH . G 7 HOH A 79 479 102 HOH HOH . G 7 HOH A 80 480 25 HOH HOH . G 7 HOH A 81 481 78 HOH HOH . G 7 HOH A 82 482 202 HOH HOH . G 7 HOH A 83 483 6 HOH HOH . G 7 HOH A 84 484 81 HOH HOH . G 7 HOH A 85 485 200 HOH HOH . G 7 HOH A 86 486 197 HOH HOH . G 7 HOH A 87 487 139 HOH HOH . G 7 HOH A 88 488 39 HOH HOH . G 7 HOH A 89 489 30 HOH HOH . G 7 HOH A 90 490 76 HOH HOH . G 7 HOH A 91 491 241 HOH HOH . G 7 HOH A 92 492 203 HOH HOH . G 7 HOH A 93 493 172 HOH HOH . G 7 HOH A 94 494 87 HOH HOH . G 7 HOH A 95 495 12 HOH HOH . G 7 HOH A 96 496 138 HOH HOH . G 7 HOH A 97 497 196 HOH HOH . G 7 HOH A 98 498 47 HOH HOH . G 7 HOH A 99 499 80 HOH HOH . G 7 HOH A 100 500 116 HOH HOH . G 7 HOH A 101 501 253 HOH HOH . G 7 HOH A 102 502 9 HOH HOH . G 7 HOH A 103 503 69 HOH HOH . G 7 HOH A 104 504 68 HOH HOH . G 7 HOH A 105 505 165 HOH HOH . G 7 HOH A 106 506 224 HOH HOH . G 7 HOH A 107 507 176 HOH HOH . G 7 HOH A 108 508 83 HOH HOH . G 7 HOH A 109 509 156 HOH HOH . G 7 HOH A 110 510 212 HOH HOH . G 7 HOH A 111 511 151 HOH HOH . G 7 HOH A 112 512 82 HOH HOH . G 7 HOH A 113 513 50 HOH HOH . G 7 HOH A 114 514 17 HOH HOH . G 7 HOH A 115 515 75 HOH HOH . G 7 HOH A 116 516 35 HOH HOH . G 7 HOH A 117 517 89 HOH HOH . G 7 HOH A 118 518 8 HOH HOH . G 7 HOH A 119 519 173 HOH HOH . G 7 HOH A 120 520 201 HOH HOH . G 7 HOH A 121 521 236 HOH HOH . G 7 HOH A 122 522 37 HOH HOH . G 7 HOH A 123 523 155 HOH HOH . G 7 HOH A 124 524 98 HOH HOH . G 7 HOH A 125 525 174 HOH HOH . G 7 HOH A 126 526 247 HOH HOH . G 7 HOH A 127 527 67 HOH HOH . G 7 HOH A 128 528 246 HOH HOH . G 7 HOH A 129 529 77 HOH HOH . G 7 HOH A 130 530 242 HOH HOH . G 7 HOH A 131 531 46 HOH HOH . G 7 HOH A 132 532 267 HOH HOH . G 7 HOH A 133 533 54 HOH HOH . G 7 HOH A 134 534 252 HOH HOH . G 7 HOH A 135 535 61 HOH HOH . G 7 HOH A 136 536 169 HOH HOH . G 7 HOH A 137 537 29 HOH HOH . G 7 HOH A 138 538 72 HOH HOH . G 7 HOH A 139 539 1 HOH HOH . G 7 HOH A 140 540 18 HOH HOH . G 7 HOH A 141 541 60 HOH HOH . G 7 HOH A 142 542 240 HOH HOH . G 7 HOH A 143 543 71 HOH HOH . G 7 HOH A 144 544 65 HOH HOH . G 7 HOH A 145 545 194 HOH HOH . G 7 HOH A 146 546 269 HOH HOH . G 7 HOH A 147 547 16 HOH HOH . G 7 HOH A 148 548 14 HOH HOH . G 7 HOH A 149 549 130 HOH HOH . G 7 HOH A 150 550 231 HOH HOH . G 7 HOH A 151 551 145 HOH HOH . G 7 HOH A 152 552 120 HOH HOH . G 7 HOH A 153 553 141 HOH HOH . G 7 HOH A 154 554 226 HOH HOH . G 7 HOH A 155 555 142 HOH HOH . G 7 HOH A 156 556 45 HOH HOH . G 7 HOH A 157 557 3 HOH HOH . G 7 HOH A 158 558 38 HOH HOH . G 7 HOH A 159 559 110 HOH HOH . G 7 HOH A 160 560 245 HOH HOH . G 7 HOH A 161 561 118 HOH HOH . G 7 HOH A 162 562 149 HOH HOH . G 7 HOH A 163 563 31 HOH HOH . G 7 HOH A 164 564 251 HOH HOH . G 7 HOH A 165 565 148 HOH HOH . G 7 HOH A 166 566 222 HOH HOH . G 7 HOH A 167 567 206 HOH HOH . G 7 HOH A 168 568 150 HOH HOH . G 7 HOH A 169 569 209 HOH HOH . G 7 HOH A 170 570 127 HOH HOH . G 7 HOH A 171 571 204 HOH HOH . G 7 HOH A 172 572 182 HOH HOH . G 7 HOH A 173 573 219 HOH HOH . G 7 HOH A 174 574 2 HOH HOH . G 7 HOH A 175 575 44 HOH HOH . G 7 HOH A 176 576 143 HOH HOH . G 7 HOH A 177 577 249 HOH HOH . G 7 HOH A 178 578 146 HOH HOH . G 7 HOH A 179 579 57 HOH HOH . G 7 HOH A 180 580 237 HOH HOH . G 7 HOH A 181 581 90 HOH HOH . G 7 HOH A 182 582 129 HOH HOH . G 7 HOH A 183 583 218 HOH HOH . G 7 HOH A 184 584 268 HOH HOH . G 7 HOH A 185 585 4 HOH HOH . G 7 HOH A 186 586 162 HOH HOH . G 7 HOH A 187 587 230 HOH HOH . G 7 HOH A 188 588 250 HOH HOH . G 7 HOH A 189 589 11 HOH HOH . G 7 HOH A 190 590 166 HOH HOH . G 7 HOH A 191 591 160 HOH HOH . G 7 HOH A 192 592 122 HOH HOH . G 7 HOH A 193 593 152 HOH HOH . G 7 HOH A 194 594 153 HOH HOH . G 7 HOH A 195 595 199 HOH HOH . G 7 HOH A 196 596 217 HOH HOH . G 7 HOH A 197 597 234 HOH HOH . G 7 HOH A 198 598 93 HOH HOH . G 7 HOH A 199 599 186 HOH HOH . G 7 HOH A 200 600 265 HOH HOH . G 7 HOH A 201 601 135 HOH HOH . G 7 HOH A 202 602 220 HOH HOH . G 7 HOH A 203 603 208 HOH HOH . G 7 HOH A 204 604 104 HOH HOH . G 7 HOH A 205 605 262 HOH HOH . G 7 HOH A 206 606 84 HOH HOH . G 7 HOH A 207 607 163 HOH HOH . G 7 HOH A 208 608 248 HOH HOH . G 7 HOH A 209 609 131 HOH HOH . G 7 HOH A 210 610 227 HOH HOH . G 7 HOH A 211 611 216 HOH HOH . G 7 HOH A 212 612 258 HOH HOH . G 7 HOH A 213 613 128 HOH HOH . G 7 HOH A 214 614 132 HOH HOH . G 7 HOH A 215 615 178 HOH HOH . G 7 HOH A 216 616 137 HOH HOH . G 7 HOH A 217 617 259 HOH HOH . G 7 HOH A 218 618 184 HOH HOH . G 7 HOH A 219 619 136 HOH HOH . G 7 HOH A 220 620 164 HOH HOH . G 7 HOH A 221 621 256 HOH HOH . G 7 HOH A 222 622 180 HOH HOH . G 7 HOH A 223 623 189 HOH HOH . G 7 HOH A 224 624 255 HOH HOH . G 7 HOH A 225 625 181 HOH HOH . G 7 HOH A 226 626 210 HOH HOH . G 7 HOH A 227 627 107 HOH HOH . G 7 HOH A 228 628 187 HOH HOH . G 7 HOH A 229 629 238 HOH HOH . G 7 HOH A 230 630 229 HOH HOH . G 7 HOH A 231 631 106 HOH HOH . G 7 HOH A 232 632 168 HOH HOH . G 7 HOH A 233 633 171 HOH HOH . G 7 HOH A 234 634 257 HOH HOH . G 7 HOH A 235 635 66 HOH HOH . G 7 HOH A 236 636 271 HOH HOH . G 7 HOH A 237 637 263 HOH HOH . G 7 HOH A 238 638 266 HOH HOH . G 7 HOH A 239 639 140 HOH HOH . G 7 HOH A 240 640 53 HOH HOH . G 7 HOH A 241 641 254 HOH HOH . G 7 HOH A 242 642 243 HOH HOH . G 7 HOH A 243 643 228 HOH HOH . G 7 HOH A 244 644 190 HOH HOH . G 7 HOH A 245 645 158 HOH HOH . G 7 HOH A 246 646 215 HOH HOH . G 7 HOH A 247 647 244 HOH HOH . G 7 HOH A 248 648 177 HOH HOH . G 7 HOH A 249 649 170 HOH HOH . G 7 HOH A 250 650 175 HOH HOH . G 7 HOH A 251 651 260 HOH HOH . G 7 HOH A 252 652 198 HOH HOH . G 7 HOH A 253 653 233 HOH HOH . G 7 HOH A 254 654 232 HOH HOH . G 7 HOH A 255 655 213 HOH HOH . G 7 HOH A 256 656 214 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CU _atom_site.label_atom_id CU _atom_site.label_comp_id CU _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 4 _atom_site.Cartn_x -6.949 _atom_site.Cartn_y -3.403 _atom_site.Cartn_z 19.476 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 24.49 _atom_site.pdbx_formal_charge 2 _atom_site.auth_atom_id CU _atom_site.auth_comp_id CU _atom_site.auth_seq_id 301 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 1 #