data_5DJ4
#
_model_server_result.job_id            6BgwEIUBdSMIiY52w-aJ0g 
_model_server_result.datetime_utc      '2025-04-02 23:08:16' 
_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          5dj4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":501}' 
#
_entry.id    5DJ4 
#
_exptl.entry_id    5DJ4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              131.173 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            LEUCINE 
_entity.pdbx_number_of_molecules    5 
_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            5DJ4 
_cell.length_a            293.029 
_cell.length_b            293.029 
_cell.length_c            293.029 
_cell.Z_PDB               120 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5DJ4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        197 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 2 3' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
PISA trimeric 3 software_defined_assembly 6 
PISA trimeric 3 software_defined_assembly 7 
PISA trimeric 3 software_defined_assembly 8 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,F,K 1 1 
B,G,L 2 1 
C,H,M 3 1 
D,I,N 4 1 
E,J,O 5 1 
A,F,K 6 1,4,6 
B,G,L 7 1,3,5 
C,H,M 8 1 
D,I,N 8 2 
E,J,O 8 6 
#
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_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 293.029 0 293.029 
3 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 
4 'crystal symmetry operation' 7_665 -z+1,-x+1,y 0 0 -1 -1 0 0 0 1 0 293.029 293.029 0 
5 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 
6 'crystal symmetry operation' 10_656 -y+1,z,-x+1 0 -1 0 0 0 1 -1 0 0 293.029 0 293.029 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
#
_chem_comp.formula           'C6 H13 N O2' 
_chem_comp.formula_weight    131.173 
_chem_comp.id                LEU 
_chem_comp.mon_nstd_flag     y 
_chem_comp.name              LEUCINE 
_chem_comp.type              'l-peptide linking' 
_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
N CA LEU sing 173 n n 
N H LEU sing 174 n n 
N H2 LEU sing 175 n n 
CA C LEU sing 176 n n 
CA CB LEU sing 177 n n 
CA HA LEU sing 178 n n 
C O LEU doub 179 n n 
C OXT LEU sing 180 n n 
CB CG LEU sing 181 n n 
CB HB2 LEU sing 182 n n 
CB HB3 LEU sing 183 n n 
CG CD1 LEU sing 184 n n 
CG CD2 LEU sing 185 n n 
CG HG LEU sing 186 n n 
CD1 HD11 LEU sing 187 n n 
CD1 HD12 LEU sing 188 n n 
CD1 HD13 LEU sing 189 n n 
CD2 HD21 LEU sing 190 n n 
CD2 HD22 LEU sing 191 n n 
CD2 HD23 LEU sing 192 n n 
OXT HXT LEU sing 193 n n 
#
_atom_sites.entry_id                     5DJ4 
_atom_sites.fract_transf_matrix[1][1]    0.003413 
_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]    0.003413 
_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]    0.003413 
_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
F 2 LEU A 1 501 666 LEU LEU . 
G 2 LEU B 1 501 666 LEU LEU . 
H 2 LEU C 1 501 666 LEU LEU . 
I 2 LEU D 1 501 666 LEU LEU . 
J 2 LEU E 1 501 666 LEU LEU . 
K 3 HOH A 1 601 61 HOH HOH . 
K 3 HOH A 2 602 35 HOH HOH . 
K 3 HOH A 3 603 98 HOH HOH . 
K 3 HOH A 4 604 71 HOH HOH . 
K 3 HOH A 5 605 12 HOH HOH . 
K 3 HOH A 6 606 89 HOH HOH . 
K 3 HOH A 7 607 109 HOH HOH . 
K 3 HOH A 8 608 13 HOH HOH . 
K 3 HOH A 9 609 29 HOH HOH . 
K 3 HOH A 10 610 36 HOH HOH . 
K 3 HOH A 11 611 16 HOH HOH . 
K 3 HOH A 12 612 20 HOH HOH . 
K 3 HOH A 13 613 56 HOH HOH . 
K 3 HOH A 14 614 26 HOH HOH . 
K 3 HOH A 15 615 50 HOH HOH . 
K 3 HOH A 16 616 30 HOH HOH . 
K 3 HOH A 17 617 9 HOH HOH . 
K 3 HOH A 18 618 94 HOH HOH . 
K 3 HOH A 19 619 38 HOH HOH . 
K 3 HOH A 20 620 95 HOH HOH . 
K 3 HOH A 21 621 40 HOH HOH . 
K 3 HOH A 22 622 11 HOH HOH . 
K 3 HOH A 23 623 85 HOH HOH . 
K 3 HOH A 24 624 76 HOH HOH . 
K 3 HOH A 25 625 63 HOH HOH . 
K 3 HOH A 26 626 31 HOH HOH . 
K 3 HOH A 27 627 21 HOH HOH . 
K 3 HOH A 28 628 10 HOH HOH . 
K 3 HOH A 29 629 102 HOH HOH . 
K 3 HOH A 30 630 57 HOH HOH . 
K 3 HOH A 31 631 52 HOH HOH . 
K 3 HOH A 32 632 101 HOH HOH . 
K 3 HOH A 33 633 99 HOH HOH . 
K 3 HOH A 34 634 79 HOH HOH . 
K 3 HOH A 35 635 74 HOH HOH . 
K 3 HOH A 36 636 75 HOH HOH . 
K 3 HOH A 37 637 93 HOH HOH . 
L 3 HOH B 1 601 111 HOH HOH . 
L 3 HOH B 2 602 5 HOH HOH . 
L 3 HOH B 3 603 65 HOH HOH . 
L 3 HOH B 4 604 97 HOH HOH . 
L 3 HOH B 5 605 22 HOH HOH . 
L 3 HOH B 6 606 46 HOH HOH . 
L 3 HOH B 7 607 37 HOH HOH . 
L 3 HOH B 8 608 17 HOH HOH . 
L 3 HOH B 9 609 1 HOH HOH . 
L 3 HOH B 10 610 2 HOH HOH . 
L 3 HOH B 11 611 104 HOH HOH . 
L 3 HOH B 12 612 110 HOH HOH . 
L 3 HOH B 13 613 34 HOH HOH . 
L 3 HOH B 14 614 4 HOH HOH . 
L 3 HOH B 15 615 41 HOH HOH . 
L 3 HOH B 16 616 59 HOH HOH . 
L 3 HOH B 17 617 92 HOH HOH . 
L 3 HOH B 18 618 81 HOH HOH . 
L 3 HOH B 19 619 70 HOH HOH . 
L 3 HOH B 20 620 78 HOH HOH . 
L 3 HOH B 21 621 8 HOH HOH . 
L 3 HOH B 22 622 88 HOH HOH . 
L 3 HOH B 23 623 3 HOH HOH . 
L 3 HOH B 24 624 6 HOH HOH . 
M 3 HOH C 1 601 25 HOH HOH . 
M 3 HOH C 2 602 73 HOH HOH . 
M 3 HOH C 3 603 91 HOH HOH . 
M 3 HOH C 4 604 84 HOH HOH . 
M 3 HOH C 5 605 48 HOH HOH . 
M 3 HOH C 6 606 27 HOH HOH . 
M 3 HOH C 7 607 42 HOH HOH . 
M 3 HOH C 8 608 33 HOH HOH . 
M 3 HOH C 9 609 47 HOH HOH . 
M 3 HOH C 10 610 60 HOH HOH . 
M 3 HOH C 11 611 44 HOH HOH . 
M 3 HOH C 12 612 39 HOH HOH . 
M 3 HOH C 13 613 28 HOH HOH . 
M 3 HOH C 14 614 83 HOH HOH . 
M 3 HOH C 15 615 113 HOH HOH . 
M 3 HOH C 16 616 114 HOH HOH . 
N 3 HOH D 1 601 15 HOH HOH . 
N 3 HOH D 2 602 24 HOH HOH . 
N 3 HOH D 3 603 55 HOH HOH . 
N 3 HOH D 4 604 18 HOH HOH . 
N 3 HOH D 5 605 19 HOH HOH . 
N 3 HOH D 6 606 68 HOH HOH . 
N 3 HOH D 7 607 72 HOH HOH . 
N 3 HOH D 8 608 108 HOH HOH . 
N 3 HOH D 9 609 106 HOH HOH . 
N 3 HOH D 10 610 7 HOH HOH . 
N 3 HOH D 11 611 23 HOH HOH . 
N 3 HOH D 12 612 58 HOH HOH . 
N 3 HOH D 13 613 69 HOH HOH . 
N 3 HOH D 14 614 32 HOH HOH . 
N 3 HOH D 15 615 103 HOH HOH . 
N 3 HOH D 16 616 96 HOH HOH . 
N 3 HOH D 17 617 90 HOH HOH . 
O 3 HOH E 1 601 107 HOH HOH . 
O 3 HOH E 2 602 80 HOH HOH . 
O 3 HOH E 3 603 112 HOH HOH . 
O 3 HOH E 4 604 67 HOH HOH . 
O 3 HOH E 5 605 54 HOH HOH . 
O 3 HOH E 6 606 87 HOH HOH . 
O 3 HOH E 7 607 43 HOH HOH . 
O 3 HOH E 8 608 45 HOH HOH . 
O 3 HOH E 9 609 82 HOH HOH . 
O 3 HOH E 10 610 49 HOH HOH . 
O 3 HOH E 11 611 14 HOH HOH . 
O 3 HOH E 12 612 64 HOH HOH . 
O 3 HOH E 13 613 105 HOH HOH . 
O 3 HOH E 14 614 77 HOH HOH . 
O 3 HOH E 15 615 86 HOH HOH . 
O 3 HOH E 16 616 100 HOH HOH . 
O 3 HOH E 17 617 66 HOH HOH . 
O 3 HOH E 18 618 62 HOH HOH . 
O 3 HOH E 19 619 115 HOH HOH . 
O 3 HOH E 20 620 51 HOH HOH . 
O 3 HOH E 21 621 53 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 N N LEU . . . J 2 151.438 83.226 71.322 1 50.45 ? N LEU 501 E 1 
HETATM 2 C CA LEU . . . J 2 150.616 82.076 70.993 1 50 ? CA LEU 501 E 1 
HETATM 3 C C LEU . . . J 2 151.323 81.185 69.979 1 50.75 ? C LEU 501 E 1 
HETATM 4 O O LEU . . . J 2 152.378 81.516 69.487 1 51.51 ? O LEU 501 E 1 
HETATM 5 C CB LEU . . . J 2 149.267 82.538 70.463 1 51.14 ? CB LEU 501 E 1 
HETATM 6 C CG LEU . . . J 2 148.023 81.965 71.12 1 50.04 ? CG LEU 501 E 1 
HETATM 7 C CD1 LEU . . . J 2 148.159 82.069 72.62 1 48.83 ? CD1 LEU 501 E 1 
HETATM 8 C CD2 LEU . . . J 2 146.79 82.696 70.619 1 46.34 ? CD2 LEU 501 E 1 
HETATM 9 O OXT LEU . . . J 2 150.886 80.106 69.614 1 50.85 ? OXT LEU 501 E 1 
#
_model_server_stats.io_time_ms              32 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           9 
#