data_6ZJ5
#
_model_server_result.job_id            5oBKuUXSM5dmczmOoyCkEA 
_model_server_result.datetime_utc      '2024-11-06 03:02:12' 
_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          6zj5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":508}' 
#
_entry.id    6ZJ5 
#
_exptl.entry_id    6ZJ5 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              163.172 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-DEOXYMANNOJIRIMYCIN 
_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         120 
_cell.entry_id            6ZJ5 
_cell.length_a            128.549 
_cell.length_b            128.549 
_cell.length_c            48.264 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ZJ5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        171 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 62' 
#
_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 
_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                      5 
_struct_asym.id                             I 
_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
covale ? covale1 I O3 DMJ . AAA DMJ 508 1_555 J C1 GLC . AAA GLC 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
metalc ? metalc1 E MG MG . AAA MG 504 1_555 F O5 TEW . AAA TEW 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc2 E MG MG . AAA MG 504 1_555 K O HOH . AAA HOH 652 6_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? 
#
_chem_comp.formula           'C6 H13 N O4' 
_chem_comp.formula_weight    163.172 
_chem_comp.id                DMJ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-DEOXYMANNOJIRIMYCIN 
_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
C4 O4 DMJ sing 83 n n 
C4 C3 DMJ sing 84 n n 
C4 C5 DMJ sing 85 n n 
C4 H4 DMJ sing 86 n n 
O4 HO4 DMJ sing 87 n n 
C3 O3 DMJ sing 88 n n 
C3 C2 DMJ sing 89 n n 
C3 H3 DMJ sing 90 n n 
O3 HO3 DMJ sing 91 n n 
C2 O2 DMJ sing 92 n n 
C2 C1 DMJ sing 93 n n 
C2 H2 DMJ sing 94 n n 
O2 HO2 DMJ sing 95 n n 
C1 N5 DMJ sing 96 n n 
C1 H11 DMJ sing 97 n n 
C1 H12 DMJ sing 98 n n 
N5 C5 DMJ sing 99 n n 
N5 HN5 DMJ sing 100 n n 
C5 C6 DMJ sing 101 n n 
C5 H5 DMJ sing 102 n n 
C6 O6 DMJ sing 103 n n 
C6 H61 DMJ sing 104 n n 
C6 H62 DMJ sing 105 n n 
O6 HO6 DMJ sing 106 n n 
#
_atom_sites.entry_id                     6ZJ5 
_atom_sites.fract_transf_matrix[1][1]    0.007779 
_atom_sites.fract_transf_matrix[1][2]    0.004491 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008983 
_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]    0.020719 
_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 EPE AAA 1 501 501 EPE EPE . 
C 2 EPE AAA 1 502 502 EPE EPE . 
D 2 EPE AAA 1 503 503 EPE EPE . 
E 3 MG AAA 1 504 505 MG MG . 
F 4 TEW AAA 1 505 506 TEW TEW . 
G 4 TEW AAA 1 506 507 TEW TEW . 
H 4 TEW AAA 1 507 508 TEW TEW . 
I 5 DMJ AAA 1 508 510 DMJ DMJ . 
J 6 GLC AAA 1 509 509 GLC GLC . 
K 7 HOH AAA 1 601 687 HOH HOH . 
K 7 HOH AAA 2 602 644 HOH HOH . 
K 7 HOH AAA 3 603 671 HOH HOH . 
K 7 HOH AAA 4 604 649 HOH HOH . 
K 7 HOH AAA 5 605 678 HOH HOH . 
K 7 HOH AAA 6 606 642 HOH HOH . 
K 7 HOH AAA 7 607 674 HOH HOH . 
K 7 HOH AAA 8 608 668 HOH HOH . 
K 7 HOH AAA 9 609 672 HOH HOH . 
K 7 HOH AAA 10 610 681 HOH HOH . 
K 7 HOH AAA 11 611 637 HOH HOH . 
K 7 HOH AAA 12 612 667 HOH HOH . 
K 7 HOH AAA 13 613 639 HOH HOH . 
K 7 HOH AAA 14 614 640 HOH HOH . 
K 7 HOH AAA 15 615 693 HOH HOH . 
K 7 HOH AAA 16 616 669 HOH HOH . 
K 7 HOH AAA 17 617 611 HOH HOH . 
K 7 HOH AAA 18 618 660 HOH HOH . 
K 7 HOH AAA 19 619 648 HOH HOH . 
K 7 HOH AAA 20 620 652 HOH HOH . 
K 7 HOH AAA 21 621 604 HOH HOH . 
K 7 HOH AAA 22 622 646 HOH HOH . 
K 7 HOH AAA 23 623 664 HOH HOH . 
K 7 HOH AAA 24 624 629 HOH HOH . 
K 7 HOH AAA 25 625 641 HOH HOH . 
K 7 HOH AAA 26 626 682 HOH HOH . 
K 7 HOH AAA 27 627 609 HOH HOH . 
K 7 HOH AAA 28 628 666 HOH HOH . 
K 7 HOH AAA 29 629 657 HOH HOH . 
K 7 HOH AAA 30 630 634 HOH HOH . 
K 7 HOH AAA 31 631 647 HOH HOH . 
K 7 HOH AAA 32 632 650 HOH HOH . 
K 7 HOH AAA 33 633 638 HOH HOH . 
K 7 HOH AAA 34 634 670 HOH HOH . 
K 7 HOH AAA 35 635 627 HOH HOH . 
K 7 HOH AAA 36 636 608 HOH HOH . 
K 7 HOH AAA 37 637 680 HOH HOH . 
K 7 HOH AAA 38 638 683 HOH HOH . 
K 7 HOH AAA 39 639 607 HOH HOH . 
K 7 HOH AAA 40 640 651 HOH HOH . 
K 7 HOH AAA 41 641 661 HOH HOH . 
K 7 HOH AAA 42 642 633 HOH HOH . 
K 7 HOH AAA 43 643 610 HOH HOH . 
K 7 HOH AAA 44 644 689 HOH HOH . 
K 7 HOH AAA 45 645 626 HOH HOH . 
K 7 HOH AAA 46 646 677 HOH HOH . 
K 7 HOH AAA 47 647 635 HOH HOH . 
K 7 HOH AAA 48 648 684 HOH HOH . 
K 7 HOH AAA 49 649 692 HOH HOH . 
K 7 HOH AAA 50 650 665 HOH HOH . 
K 7 HOH AAA 51 651 694 HOH HOH . 
K 7 HOH AAA 52 652 631 HOH HOH . 
K 7 HOH AAA 53 653 621 HOH HOH . 
K 7 HOH AAA 54 654 675 HOH HOH . 
K 7 HOH AAA 55 655 612 HOH HOH . 
K 7 HOH AAA 56 656 602 HOH HOH . 
K 7 HOH AAA 57 657 622 HOH HOH . 
K 7 HOH AAA 58 658 636 HOH HOH . 
K 7 HOH AAA 59 659 685 HOH HOH . 
K 7 HOH AAA 60 660 613 HOH HOH . 
K 7 HOH AAA 61 661 628 HOH HOH . 
K 7 HOH AAA 62 662 618 HOH HOH . 
K 7 HOH AAA 63 663 601 HOH HOH . 
K 7 HOH AAA 64 664 630 HOH HOH . 
K 7 HOH AAA 65 665 691 HOH HOH . 
K 7 HOH AAA 66 666 645 HOH HOH . 
K 7 HOH AAA 67 667 603 HOH HOH . 
K 7 HOH AAA 68 668 653 HOH HOH . 
K 7 HOH AAA 69 669 654 HOH HOH . 
K 7 HOH AAA 70 670 659 HOH HOH . 
K 7 HOH AAA 71 671 655 HOH HOH . 
K 7 HOH AAA 72 672 663 HOH HOH . 
K 7 HOH AAA 73 673 676 HOH HOH . 
K 7 HOH AAA 74 674 616 HOH HOH . 
K 7 HOH AAA 75 675 606 HOH HOH . 
K 7 HOH AAA 76 676 643 HOH HOH . 
K 7 HOH AAA 77 677 619 HOH HOH . 
K 7 HOH AAA 78 678 679 HOH HOH . 
K 7 HOH AAA 79 679 656 HOH HOH . 
K 7 HOH AAA 80 680 620 HOH HOH . 
K 7 HOH AAA 81 681 605 HOH HOH . 
K 7 HOH AAA 82 682 673 HOH HOH . 
K 7 HOH AAA 83 683 686 HOH HOH . 
K 7 HOH AAA 84 684 662 HOH HOH . 
K 7 HOH AAA 85 685 632 HOH HOH . 
K 7 HOH AAA 86 686 617 HOH HOH . 
K 7 HOH AAA 87 687 690 HOH HOH . 
K 7 HOH AAA 88 688 625 HOH HOH . 
K 7 HOH AAA 89 689 615 HOH HOH . 
K 7 HOH AAA 90 690 688 HOH HOH . 
K 7 HOH AAA 91 691 623 HOH HOH . 
K 7 HOH AAA 92 692 658 HOH HOH . 
K 7 HOH AAA 93 693 624 HOH HOH . 
K 7 HOH AAA 94 694 614 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 C4 DMJ . . . I 5 49.068 20.061 -7.621 1 23.03 0 C4 DMJ 508 AAA 1 
HETATM 2 O O4 DMJ . . . I 5 49.202 21.449 -7.896 1 20.96 0 O4 DMJ 508 AAA 1 
HETATM 3 C C3 DMJ . . . I 5 50.406 19.338 -7.321 1 22.4 0 C3 DMJ 508 AAA 1 
HETATM 4 O O3 DMJ . . . I 5 51.2 19.312 -8.518 1 22.66 0 O3 DMJ 508 AAA 1 
HETATM 5 C C2 DMJ . . . I 5 50.182 17.883 -6.943 1 21.88 0 C2 DMJ 508 AAA 1 
HETATM 6 O O2 DMJ . . . I 5 49.664 17.179 -8.071 1 20.68 0 O2 DMJ 508 AAA 1 
HETATM 7 C C1 DMJ . . . I 5 49.177 17.737 -5.822 1 22.16 0 C1 DMJ 508 AAA 1 
HETATM 8 N N5 DMJ . . . I 5 47.998 18.487 -6.183 1 22.69 0 N5 DMJ 508 AAA 1 
HETATM 9 C C5 DMJ . . . I 5 48.106 19.909 -6.452 1 23.76 0 C5 DMJ 508 AAA 1 
HETATM 10 C C6 DMJ . . . I 5 46.724 20.525 -6.711 1 23.92 0 C6 DMJ 508 AAA 1 
HETATM 11 O O6 DMJ . . . I 5 45.931 19.657 -7.518 1 23.24 0 O6 DMJ 508 AAA 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           284 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           11 
#