data_7PN4 # _model_server_result.job_id 6kmKkuVMyGh21sj3JlrMog _model_server_result.datetime_utc '2024-11-13 21:06:17' _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 7pn4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":405}' # _entry.id 7PN4 # _exptl.entry_id 7PN4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 128.171 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NAPHTHALENE _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 109.44 _cell.angle_gamma 90 _cell.entry_id 7PN4 _cell.length_a 50.957 _cell.length_b 57.651 _cell.length_c 60.628 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PN4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,H,I,J,K,L,M,N _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 278 A CYS 278 1_555 A SG CYS 319 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? covale ? covale1 A ND2 ASN 11 A ASN 11 1_555 G C1 NAG . A NAG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 A ND2 ASN 141 A ASN 141 1_555 I C1 NAG . A NAG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 161 A ASN 161 1_555 E C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale4 A ND2 ASN 286 A ASN 286 1_555 J C1 NAG . A NAG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? metalc ? metalc1 A SG CYS 36 A CYS 36 1_555 B FE HEM . A HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc2 A OE2 GLU 122 A GLU 122 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc3 A O GLY 123 A GLY 123 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc4 A OG SER 126 A SER 126 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc5 B O2A HEM . A HEM 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc6 C MG MG . A MG 402 1_555 N O HOH . A HOH 534 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc7 C MG MG . A MG 402 1_555 N O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? # _chem_comp.formula 'C10 H8' _chem_comp.formula_weight 128.171 _chem_comp.id NPY _chem_comp.mon_nstd_flag . _chem_comp.name NAPHTHALENE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 NPY doub 367 n y C1 C8A NPY sing 368 n y C1 H11 NPY sing 369 n n C2 C3 NPY sing 370 n y C2 H2 NPY sing 371 n n C3 C4 NPY doub 372 n y C3 H3 NPY sing 373 n n C4 C4A NPY sing 374 n y C4 H4 NPY sing 375 n n C4A C5 NPY sing 376 n y C4A C8A NPY doub 377 n y C5 C6 NPY doub 378 n y C5 H5 NPY sing 379 n n C6 C7 NPY sing 380 n y C6 H6 NPY sing 381 n n C7 C8 NPY doub 382 n y C7 H7 NPY sing 383 n n C8 C8A NPY sing 384 n y C8 H8 NPY sing 385 n n # _atom_sites.entry_id 7PN4 _atom_sites.fract_transf_matrix[1][1] 0.019624 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006926 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017346 _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] 0.017491 _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 B 2 HEM A 1 401 401 HEM HEM . C 3 MG A 1 402 1001 MG MG . D 4 CL A 1 403 1002 CL CL . E 5 NAG A 1 404 1003 NAG NAG . F 6 NPY A 1 405 1101 NPY NPY . G 5 NAG A 1 406 1102 NAG NAG . H 7 PO4 A 1 407 1103 PO4 PO4 . I 5 NAG A 1 408 1104 NAG NAG . J 5 NAG A 1 409 1105 NAG NAG . K 8 MOH A 1 410 1106 MOH MOH . L 9 GOL A 1 411 1107 GOL GOL . M 8 MOH A 1 412 1108 MOH MOH . N 10 HOH A 1 501 125 HOH HOH . N 10 HOH A 2 502 100 HOH HOH . N 10 HOH A 3 503 140 HOH HOH . N 10 HOH A 4 504 105 HOH HOH . N 10 HOH A 5 505 104 HOH HOH . N 10 HOH A 6 506 77 HOH HOH . N 10 HOH A 7 507 48 HOH HOH . N 10 HOH A 8 508 88 HOH HOH . N 10 HOH A 9 509 144 HOH HOH . N 10 HOH A 10 510 25 HOH HOH . N 10 HOH A 11 511 120 HOH HOH . N 10 HOH A 12 512 155 HOH HOH . N 10 HOH A 13 513 83 HOH HOH . N 10 HOH A 14 514 35 HOH HOH . N 10 HOH A 15 515 86 HOH HOH . N 10 HOH A 16 516 137 HOH HOH . N 10 HOH A 17 517 41 HOH HOH . N 10 HOH A 18 518 82 HOH HOH . N 10 HOH A 19 519 102 HOH HOH . N 10 HOH A 20 520 70 HOH HOH . N 10 HOH A 21 521 146 HOH HOH . N 10 HOH A 22 522 31 HOH HOH . N 10 HOH A 23 523 1 HOH HOH . N 10 HOH A 24 524 4 HOH HOH . N 10 HOH A 25 525 158 HOH HOH . N 10 HOH A 26 526 8 HOH HOH . N 10 HOH A 27 527 89 HOH HOH . N 10 HOH A 28 528 97 HOH HOH . N 10 HOH A 29 529 113 HOH HOH . N 10 HOH A 30 530 99 HOH HOH . N 10 HOH A 31 531 29 HOH HOH . N 10 HOH A 32 532 50 HOH HOH . N 10 HOH A 33 533 157 HOH HOH . N 10 HOH A 34 534 12 HOH HOH . N 10 HOH A 35 535 79 HOH HOH . N 10 HOH A 36 536 164 HOH HOH . N 10 HOH A 37 537 112 HOH HOH . N 10 HOH A 38 538 69 HOH HOH . N 10 HOH A 39 539 33 HOH HOH . N 10 HOH A 40 540 19 HOH HOH . N 10 HOH A 41 541 80 HOH HOH . N 10 HOH A 42 542 22 HOH HOH . N 10 HOH A 43 543 56 HOH HOH . N 10 HOH A 44 544 68 HOH HOH . N 10 HOH A 45 545 26 HOH HOH . N 10 HOH A 46 546 130 HOH HOH . N 10 HOH A 47 547 72 HOH HOH . N 10 HOH A 48 548 129 HOH HOH . N 10 HOH A 49 549 2 HOH HOH . N 10 HOH A 50 550 148 HOH HOH . N 10 HOH A 51 551 85 HOH HOH . N 10 HOH A 52 552 108 HOH HOH . N 10 HOH A 53 553 142 HOH HOH . N 10 HOH A 54 554 24 HOH HOH . N 10 HOH A 55 555 32 HOH HOH . N 10 HOH A 56 556 145 HOH HOH . N 10 HOH A 57 557 40 HOH HOH . N 10 HOH A 58 558 152 HOH HOH . N 10 HOH A 59 559 87 HOH HOH . N 10 HOH A 60 560 3 HOH HOH . N 10 HOH A 61 561 143 HOH HOH . N 10 HOH A 62 562 131 HOH HOH . N 10 HOH A 63 563 55 HOH HOH . N 10 HOH A 64 564 116 HOH HOH . N 10 HOH A 65 565 94 HOH HOH . N 10 HOH A 66 566 13 HOH HOH . N 10 HOH A 67 567 42 HOH HOH . N 10 HOH A 68 568 62 HOH HOH . N 10 HOH A 69 569 95 HOH HOH . N 10 HOH A 70 570 28 HOH HOH . N 10 HOH A 71 571 114 HOH HOH . N 10 HOH A 72 572 103 HOH HOH . N 10 HOH A 73 573 98 HOH HOH . N 10 HOH A 74 574 58 HOH HOH . N 10 HOH A 75 575 74 HOH HOH . N 10 HOH A 76 576 150 HOH HOH . N 10 HOH A 77 577 5 HOH HOH . N 10 HOH A 78 578 101 HOH HOH . N 10 HOH A 79 579 134 HOH HOH . N 10 HOH A 80 580 27 HOH HOH . N 10 HOH A 81 581 160 HOH HOH . N 10 HOH A 82 582 75 HOH HOH . N 10 HOH A 83 583 71 HOH HOH . N 10 HOH A 84 584 90 HOH HOH . N 10 HOH A 85 585 43 HOH HOH . N 10 HOH A 86 586 14 HOH HOH . N 10 HOH A 87 587 15 HOH HOH . N 10 HOH A 88 588 34 HOH HOH . N 10 HOH A 89 589 51 HOH HOH . N 10 HOH A 90 590 149 HOH HOH . N 10 HOH A 91 591 122 HOH HOH . N 10 HOH A 92 592 165 HOH HOH . N 10 HOH A 93 593 156 HOH HOH . N 10 HOH A 94 594 147 HOH HOH . N 10 HOH A 95 595 119 HOH HOH . N 10 HOH A 96 596 96 HOH HOH . N 10 HOH A 97 597 93 HOH HOH . N 10 HOH A 98 598 153 HOH HOH . N 10 HOH A 99 599 81 HOH HOH . N 10 HOH A 100 600 52 HOH HOH . N 10 HOH A 101 601 16 HOH HOH . N 10 HOH A 102 602 7 HOH HOH . N 10 HOH A 103 603 128 HOH HOH . N 10 HOH A 104 604 162 HOH HOH . N 10 HOH A 105 605 110 HOH HOH . N 10 HOH A 106 606 37 HOH HOH . N 10 HOH A 107 607 78 HOH HOH . N 10 HOH A 108 608 141 HOH HOH . N 10 HOH A 109 609 10 HOH HOH . N 10 HOH A 110 610 20 HOH HOH . N 10 HOH A 111 611 9 HOH HOH . N 10 HOH A 112 612 38 HOH HOH . N 10 HOH A 113 613 17 HOH HOH . N 10 HOH A 114 614 159 HOH HOH . N 10 HOH A 115 615 6 HOH HOH . N 10 HOH A 116 616 118 HOH HOH . N 10 HOH A 117 617 59 HOH HOH . N 10 HOH A 118 618 39 HOH HOH . N 10 HOH A 119 619 161 HOH HOH . N 10 HOH A 120 620 92 HOH HOH . N 10 HOH A 121 621 49 HOH HOH . N 10 HOH A 122 622 111 HOH HOH . N 10 HOH A 123 623 65 HOH HOH . N 10 HOH A 124 624 117 HOH HOH . N 10 HOH A 125 625 124 HOH HOH . N 10 HOH A 126 626 63 HOH HOH . N 10 HOH A 127 627 139 HOH HOH . N 10 HOH A 128 628 47 HOH HOH . N 10 HOH A 129 629 45 HOH HOH . N 10 HOH A 130 630 36 HOH HOH . N 10 HOH A 131 631 54 HOH HOH . N 10 HOH A 132 632 76 HOH HOH . N 10 HOH A 133 633 11 HOH HOH . N 10 HOH A 134 634 57 HOH HOH . N 10 HOH A 135 635 23 HOH HOH . N 10 HOH A 136 636 67 HOH HOH . N 10 HOH A 137 637 46 HOH HOH . N 10 HOH A 138 638 126 HOH HOH . N 10 HOH A 139 639 151 HOH HOH . N 10 HOH A 140 640 44 HOH HOH . N 10 HOH A 141 641 169 HOH HOH . N 10 HOH A 142 642 64 HOH HOH . N 10 HOH A 143 643 18 HOH HOH . N 10 HOH A 144 644 136 HOH HOH . N 10 HOH A 145 645 91 HOH HOH . N 10 HOH A 146 646 53 HOH HOH . N 10 HOH A 147 647 66 HOH HOH . N 10 HOH A 148 648 73 HOH HOH . N 10 HOH A 149 649 109 HOH HOH . N 10 HOH A 150 650 30 HOH HOH . N 10 HOH A 151 651 127 HOH HOH . N 10 HOH A 152 652 135 HOH HOH . N 10 HOH A 153 653 21 HOH HOH . N 10 HOH A 154 654 166 HOH HOH . N 10 HOH A 155 655 123 HOH HOH . N 10 HOH A 156 656 84 HOH HOH . N 10 HOH A 157 657 133 HOH HOH . N 10 HOH A 158 658 138 HOH HOH . N 10 HOH A 159 659 132 HOH HOH . N 10 HOH A 160 660 167 HOH HOH . N 10 HOH A 161 661 121 HOH HOH . N 10 HOH A 162 662 61 HOH HOH . N 10 HOH A 163 663 107 HOH HOH . N 10 HOH A 164 664 60 HOH HOH . N 10 HOH A 165 665 163 HOH HOH . N 10 HOH A 166 666 115 HOH HOH . N 10 HOH A 167 667 154 HOH HOH . N 10 HOH A 168 668 106 HOH HOH . N 10 HOH A 169 669 168 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 NPY . . . F 6 10.647 10.04 10.387 1 88.03 ? C1 NPY 405 A 1 HETATM 2 C C2 NPY . . . F 6 11.897 9.509 10.443 1 84.3 ? C2 NPY 405 A 1 HETATM 3 C C3 NPY . . . F 6 12.124 8.179 10.057 1 84.25 ? C3 NPY 405 A 1 HETATM 4 C C4 NPY . . . F 6 11.099 7.406 9.616 1 88.2 ? C4 NPY 405 A 1 HETATM 5 C C4A NPY . . . F 6 9.781 7.918 9.544 1 89.76 ? C4A NPY 405 A 1 HETATM 6 C C5 NPY . . . F 6 8.691 7.136 9.097 1 90.15 ? C5 NPY 405 A 1 HETATM 7 C C6 NPY . . . F 6 7.44 7.655 9.051 1 93.3 ? C6 NPY 405 A 1 HETATM 8 C C7 NPY . . . F 6 7.201 8.984 9.438 1 90.88 ? C7 NPY 405 A 1 HETATM 9 C C8 NPY . . . F 6 8.221 9.772 9.865 1 90.05 ? C8 NPY 405 A 1 HETATM 10 C C8A NPY . . . F 6 9.545 9.263 9.937 1 89.45 ? C8A NPY 405 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #