data_5YVR
#
_model_server_result.job_id            qC00jNBCE_NxnjORtKkJ_Q 
_model_server_result.datetime_utc      '2024-11-27 23:31:04' 
_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          5yvr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    5YVR 
#
_exptl.entry_id    5YVR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              54.938 
_entity.id                          2 
_entity.src_method                  nat 
_entity.type                        non-polymer 
_entity.pdbx_description            'MANGANESE (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            5YVR 
_cell.length_a            58.05 
_cell.length_b            104.8 
_cell.length_c            129.54 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YVR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 58.05 0 64.77 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_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
metalc ? metalc1 A OD1 ASP 213 A ASP 204 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc2 A NE2 HIS 217 A HIS 208 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? 
metalc ? metalc3 A NE2 HIS 282 A HIS 273 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc4 A NE2 HIS 297 A HIS 288 1_555 B MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
#
_chem_comp.formula           'Mn 2' 
_chem_comp.formula_weight    54.938 
_chem_comp.id                MN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'MANGANESE (II) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5YVR 
_atom_sites.fract_transf_matrix[1][1]    0.017227 
_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]    0.009542 
_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]    0.00772 
_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 MN A 1 501 1 MN MN . 
C 3 NDP A 1 502 1 NDP NDP . 
D 4 HOH A 1 601 2 HOH HOH . 
D 4 HOH A 2 602 3 HOH HOH . 
D 4 HOH A 3 603 15 HOH HOH . 
D 4 HOH A 4 604 39 HOH HOH . 
D 4 HOH A 5 605 73 HOH HOH . 
D 4 HOH A 6 606 49 HOH HOH . 
D 4 HOH A 7 607 82 HOH HOH . 
D 4 HOH A 8 608 58 HOH HOH . 
D 4 HOH A 9 609 36 HOH HOH . 
D 4 HOH A 10 610 30 HOH HOH . 
D 4 HOH A 11 611 71 HOH HOH . 
D 4 HOH A 12 612 25 HOH HOH . 
D 4 HOH A 13 613 9 HOH HOH . 
D 4 HOH A 14 614 75 HOH HOH . 
D 4 HOH A 15 615 4 HOH HOH . 
D 4 HOH A 16 616 72 HOH HOH . 
D 4 HOH A 17 617 43 HOH HOH . 
D 4 HOH A 18 618 70 HOH HOH . 
D 4 HOH A 19 619 12 HOH HOH . 
D 4 HOH A 20 620 65 HOH HOH . 
D 4 HOH A 21 621 87 HOH HOH . 
D 4 HOH A 22 622 20 HOH HOH . 
D 4 HOH A 23 623 67 HOH HOH . 
D 4 HOH A 24 624 48 HOH HOH . 
D 4 HOH A 25 625 11 HOH HOH . 
D 4 HOH A 26 626 38 HOH HOH . 
D 4 HOH A 27 627 57 HOH HOH . 
D 4 HOH A 28 628 77 HOH HOH . 
D 4 HOH A 29 629 62 HOH HOH . 
D 4 HOH A 30 630 6 HOH HOH . 
D 4 HOH A 31 631 14 HOH HOH . 
D 4 HOH A 32 632 56 HOH HOH . 
D 4 HOH A 33 633 50 HOH HOH . 
D 4 HOH A 34 634 17 HOH HOH . 
D 4 HOH A 35 635 26 HOH HOH . 
D 4 HOH A 36 636 29 HOH HOH . 
D 4 HOH A 37 637 78 HOH HOH . 
D 4 HOH A 38 638 10 HOH HOH . 
D 4 HOH A 39 639 54 HOH HOH . 
D 4 HOH A 40 640 27 HOH HOH . 
D 4 HOH A 41 641 42 HOH HOH . 
D 4 HOH A 42 642 16 HOH HOH . 
D 4 HOH A 43 643 22 HOH HOH . 
D 4 HOH A 44 644 28 HOH HOH . 
D 4 HOH A 45 645 88 HOH HOH . 
D 4 HOH A 46 646 5 HOH HOH . 
D 4 HOH A 47 647 68 HOH HOH . 
D 4 HOH A 48 648 61 HOH HOH . 
D 4 HOH A 49 649 19 HOH HOH . 
D 4 HOH A 50 650 52 HOH HOH . 
D 4 HOH A 51 651 32 HOH HOH . 
D 4 HOH A 52 652 83 HOH HOH . 
D 4 HOH A 53 653 79 HOH HOH . 
D 4 HOH A 54 654 44 HOH HOH . 
D 4 HOH A 55 655 81 HOH HOH . 
D 4 HOH A 56 656 45 HOH HOH . 
D 4 HOH A 57 657 23 HOH HOH . 
D 4 HOH A 58 658 69 HOH HOH . 
D 4 HOH A 59 659 64 HOH HOH . 
D 4 HOH A 60 660 13 HOH HOH . 
D 4 HOH A 61 661 24 HOH HOH . 
D 4 HOH A 62 662 37 HOH HOH . 
D 4 HOH A 63 663 53 HOH HOH . 
D 4 HOH A 64 664 47 HOH HOH . 
D 4 HOH A 65 665 31 HOH HOH . 
D 4 HOH A 66 666 60 HOH HOH . 
D 4 HOH A 67 667 41 HOH HOH . 
D 4 HOH A 68 668 7 HOH HOH . 
D 4 HOH A 69 669 1 HOH HOH . 
D 4 HOH A 70 670 33 HOH HOH . 
D 4 HOH A 71 671 59 HOH HOH . 
D 4 HOH A 72 672 55 HOH HOH . 
D 4 HOH A 73 673 35 HOH HOH . 
D 4 HOH A 74 674 85 HOH HOH . 
D 4 HOH A 75 675 86 HOH HOH . 
D 4 HOH A 76 676 51 HOH HOH . 
D 4 HOH A 77 677 34 HOH HOH . 
D 4 HOH A 78 678 74 HOH HOH . 
D 4 HOH A 79 679 18 HOH HOH . 
D 4 HOH A 80 680 76 HOH HOH . 
D 4 HOH A 81 681 84 HOH HOH . 
D 4 HOH A 82 682 8 HOH HOH . 
D 4 HOH A 83 683 21 HOH HOH . 
D 4 HOH A 84 684 80 HOH HOH . 
D 4 HOH A 85 685 66 HOH HOH . 
D 4 HOH A 86 686 46 HOH HOH . 
D 4 HOH A 87 687 63 HOH HOH . 
D 4 HOH A 88 688 40 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           MN 
_atom_site.label_atom_id         MN 
_atom_site.label_comp_id         MN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         B 
_atom_site.label_entity_id       2 
_atom_site.Cartn_x               17.393 
_atom_site.Cartn_y               9.505 
_atom_site.Cartn_z               47.549 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        55.65 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          MN 
_atom_site.auth_comp_id          MN 
_atom_site.auth_seq_id           501 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           261 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           1 
#