data_7E3N
#
_model_server_result.job_id            f3cO7lK0bQ_FPMHOzupB_A 
_model_server_result.datetime_utc      '2024-10-10 09:29:37' 
_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          7e3n 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":503}' 
#
_entry.id    7E3N 
#
_exptl.entry_id    7E3N 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              192.124 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ISOCITRIC ACID' 
_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          121.04 
_cell.angle_gamma         90 
_cell.entry_id            7E3N 
_cell.length_a            105.267 
_cell.length_b            89.767 
_cell.length_c            62.031 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7E3N 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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,E 
_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' 2_454 -x-1,y,-z-1 -1 0 0 0 1 0 0 0 -1 -73.281561 0 -53.148628 
#
_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_
_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 OD2 ASP 251 A ASP 251 1_555 C CA CA . A CA 502 2_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc2 A OD1 ASP 274 A ASP 274 1_555 C CA CA . A CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc3 C CA CA . A CA 502 1_555 D O7 ICT . A ICT 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.081 ? 
metalc ? metalc4 C CA CA . A CA 502 1_555 D O3 ICT . A ICT 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc5 C CA CA . A CA 502 1_555 E O HOH . A HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.525 ? 
metalc ? metalc6 C CA CA . A CA 502 1_555 E O HOH . A HOH 624 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? 
metalc ? metalc7 C CA CA . A CA 502 1_555 E O HOH . A HOH 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? 
#
_chem_comp.formula           'C6 H8 O7' 
_chem_comp.formula_weight    192.124 
_chem_comp.id                ICT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ISOCITRIC ACID' 
_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 O1 ICT doub 152 n n 
C1 O2 ICT sing 153 n n 
C1 C2 ICT sing 154 n n 
O2 HO2 ICT sing 155 n n 
C2 O7 ICT sing 156 n n 
C2 C3 ICT sing 157 n n 
C2 H2 ICT sing 158 n n 
O7 HO7 ICT sing 159 n n 
C3 C4 ICT sing 160 n n 
C3 C6 ICT sing 161 n n 
C3 H3 ICT sing 162 n n 
C4 C5 ICT sing 163 n n 
C4 H41 ICT sing 164 n n 
C4 H42 ICT sing 165 n n 
C5 O3 ICT doub 166 n n 
C5 O4 ICT sing 167 n n 
O4 HO4 ICT sing 168 n n 
C6 O5 ICT doub 169 n n 
C6 O6 ICT sing 170 n n 
O6 HO6 ICT sing 171 n n 
#
_atom_sites.entry_id                     7E3N 
_atom_sites.fract_transf_matrix[1][1]    0.0095 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005717 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01114 
_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]    0.018815 
_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 NAP A 1 501 415 NAP NAP . 
C 3 CA A 1 502 501 CA CA . 
D 4 ICT A 1 503 601 ICT ICT . 
E 5 HOH A 1 601 30 HOH HOH . 
E 5 HOH A 2 602 84 HOH HOH . 
E 5 HOH A 3 603 53 HOH HOH . 
E 5 HOH A 4 604 26 HOH HOH . 
E 5 HOH A 5 605 5 HOH HOH . 
E 5 HOH A 6 606 57 HOH HOH . 
E 5 HOH A 7 607 46 HOH HOH . 
E 5 HOH A 8 608 23 HOH HOH . 
E 5 HOH A 9 609 39 HOH HOH . 
E 5 HOH A 10 610 43 HOH HOH . 
E 5 HOH A 11 611 34 HOH HOH . 
E 5 HOH A 12 612 85 HOH HOH . 
E 5 HOH A 13 613 12 HOH HOH . 
E 5 HOH A 14 614 73 HOH HOH . 
E 5 HOH A 15 615 2 HOH HOH . 
E 5 HOH A 16 616 67 HOH HOH . 
E 5 HOH A 17 617 50 HOH HOH . 
E 5 HOH A 18 618 65 HOH HOH . 
E 5 HOH A 19 619 27 HOH HOH . 
E 5 HOH A 20 620 21 HOH HOH . 
E 5 HOH A 21 621 14 HOH HOH . 
E 5 HOH A 22 622 8 HOH HOH . 
E 5 HOH A 23 623 64 HOH HOH . 
E 5 HOH A 24 624 7 HOH HOH . 
E 5 HOH A 25 625 31 HOH HOH . 
E 5 HOH A 26 626 47 HOH HOH . 
E 5 HOH A 27 627 25 HOH HOH . 
E 5 HOH A 28 628 29 HOH HOH . 
E 5 HOH A 29 629 1 HOH HOH . 
E 5 HOH A 30 630 24 HOH HOH . 
E 5 HOH A 31 631 11 HOH HOH . 
E 5 HOH A 32 632 58 HOH HOH . 
E 5 HOH A 33 633 9 HOH HOH . 
E 5 HOH A 34 634 52 HOH HOH . 
E 5 HOH A 35 635 80 HOH HOH . 
E 5 HOH A 36 636 72 HOH HOH . 
E 5 HOH A 37 637 87 HOH HOH . 
E 5 HOH A 38 638 56 HOH HOH . 
E 5 HOH A 39 639 49 HOH HOH . 
E 5 HOH A 40 640 19 HOH HOH . 
E 5 HOH A 41 641 51 HOH HOH . 
E 5 HOH A 42 642 3 HOH HOH . 
E 5 HOH A 43 643 48 HOH HOH . 
E 5 HOH A 44 644 16 HOH HOH . 
E 5 HOH A 45 645 69 HOH HOH . 
E 5 HOH A 46 646 40 HOH HOH . 
E 5 HOH A 47 647 77 HOH HOH . 
E 5 HOH A 48 648 44 HOH HOH . 
E 5 HOH A 49 649 22 HOH HOH . 
E 5 HOH A 50 650 36 HOH HOH . 
E 5 HOH A 51 651 59 HOH HOH . 
E 5 HOH A 52 652 54 HOH HOH . 
E 5 HOH A 53 653 82 HOH HOH . 
E 5 HOH A 54 654 79 HOH HOH . 
E 5 HOH A 55 655 33 HOH HOH . 
E 5 HOH A 56 656 17 HOH HOH . 
E 5 HOH A 57 657 62 HOH HOH . 
E 5 HOH A 58 658 75 HOH HOH . 
E 5 HOH A 59 659 18 HOH HOH . 
E 5 HOH A 60 660 74 HOH HOH . 
E 5 HOH A 61 661 41 HOH HOH . 
E 5 HOH A 62 662 45 HOH HOH . 
E 5 HOH A 63 663 13 HOH HOH . 
E 5 HOH A 64 664 68 HOH HOH . 
E 5 HOH A 65 665 6 HOH HOH . 
E 5 HOH A 66 666 10 HOH HOH . 
E 5 HOH A 67 667 20 HOH HOH . 
E 5 HOH A 68 668 63 HOH HOH . 
E 5 HOH A 69 669 76 HOH HOH . 
E 5 HOH A 70 670 78 HOH HOH . 
E 5 HOH A 71 671 15 HOH HOH . 
E 5 HOH A 72 672 66 HOH HOH . 
E 5 HOH A 73 673 71 HOH HOH . 
E 5 HOH A 74 674 35 HOH HOH . 
E 5 HOH A 75 675 83 HOH HOH . 
E 5 HOH A 76 676 70 HOH HOH . 
E 5 HOH A 77 677 4 HOH HOH . 
E 5 HOH A 78 678 37 HOH HOH . 
E 5 HOH A 79 679 38 HOH HOH . 
E 5 HOH A 80 680 61 HOH HOH . 
E 5 HOH A 81 681 28 HOH HOH . 
E 5 HOH A 82 682 32 HOH HOH . 
E 5 HOH A 83 683 55 HOH HOH . 
E 5 HOH A 84 684 60 HOH HOH . 
E 5 HOH A 85 685 81 HOH HOH . 
E 5 HOH A 86 686 42 HOH HOH . 
E 5 HOH A 87 687 86 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 ICT . . . D 4 -28.23 -7.577 -16.492 1 33.02 ? C1 ICT 503 A 1 
HETATM 2 O O1 ICT . . . D 4 -27.44 -8.546 -16.482 1 30.59 ? O1 ICT 503 A 1 
HETATM 3 O O2 ICT . . . D 4 -29.45 -7.592 -16.281 1 27.76 ? O2 ICT 503 A 1 
HETATM 4 C C2 ICT . . . D 4 -27.717 -6.207 -16.701 1 35.7 ? C2 ICT 503 A 1 
HETATM 5 O O7 ICT . . . D 4 -27.15 -5.956 -17.955 1 37.47 ? O7 ICT 503 A 1 
HETATM 6 C C3 ICT . . . D 4 -26.809 -6.035 -15.476 1 35.29 ? C3 ICT 503 A 1 
HETATM 7 C C4 ICT . . . D 4 -26.812 -4.604 -15.016 1 34.86 ? C4 ICT 503 A 1 
HETATM 8 C C5 ICT . . . D 4 -28.135 -3.911 -15.238 1 29.96 ? C5 ICT 503 A 1 
HETATM 9 O O3 ICT . . . D 4 -28.108 -3.101 -16.162 1 29.03 ? O3 ICT 503 A 1 
HETATM 10 O O4 ICT . . . D 4 -29.148 -4.088 -14.525 1 28.89 ? O4 ICT 503 A 1 
HETATM 11 C C6 ICT . . . D 4 -25.424 -6.684 -15.525 1 35.16 ? C6 ICT 503 A 1 
HETATM 12 O O5 ICT . . . D 4 -24.684 -6.797 -16.531 1 35.4 ? O5 ICT 503 A 1 
HETATM 13 O O6 ICT . . . D 4 -25.067 -7.14 -14.426 1 31.18 ? O6 ICT 503 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           260 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           13 
#