data_8DKM
#
_model_server_result.job_id            82loughKQIR8Dbv9HLooeA 
_model_server_result.datetime_utc      '2024-11-19 14:50:57' 
_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          8dkm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    8DKM 
#
_exptl.entry_id    8DKM 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              240.3 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            L-cystine 
_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            8DKM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8DKM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_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 
#
_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    ? 
_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                      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
disulf ? disulf1 A SG CYS 41 A CYS 22 1_555 A SG CYS 116 A CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf2 B SG CYS 42 B CYS 23 1_555 B SG CYS 107 B CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
#
_chem_comp.formula           'C6 H12 N2 O4 S2' 
_chem_comp.formula_weight    240.3 
_chem_comp.id                IYY 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              L-cystine 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '(2R)-2-azanyl-3-[[(2R)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]disulfanyl]propanoic acid' 
#
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 IYY sing 171 n n 
S1 SG IYY sing 172 n n 
S1 C3 IYY sing 173 n n 
O3 C5 IYY sing 174 n n 
SG C1 IYY sing 175 n n 
CA C1 IYY sing 176 n n 
CA CB IYY sing 177 n n 
C5 C4 IYY sing 178 n n 
C5 O2 IYY doub 179 n n 
C4 C3 IYY sing 180 n n 
C4 N1 IYY sing 181 n n 
OXT CB IYY sing 182 n n 
CB O IYY doub 183 n n 
CA HA IYY sing 184 n n 
O3 H9 IYY sing 185 n n 
C4 H1 IYY sing 186 n n 
N1 H10 IYY sing 187 n n 
N1 H11 IYY sing 188 n n 
C3 H8 IYY sing 189 n n 
C3 H7 IYY sing 190 n n 
C1 HB2 IYY sing 191 n n 
C1 HB3 IYY sing 192 n n 
N H2 IYY sing 193 n n 
N H IYY sing 194 n n 
OXT HXT IYY sing 195 n n 
#
_atom_sites.entry_id                     8DKM 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          D 
_pdbx_nonpoly_scheme.entity_id        4 
_pdbx_nonpoly_scheme.mon_id           IYY 
_pdbx_nonpoly_scheme.pdb_strand_id    P 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      501 
_pdbx_nonpoly_scheme.auth_seq_num     1 
_pdbx_nonpoly_scheme.pdb_mon_id       IYY 
_pdbx_nonpoly_scheme.auth_mon_id      CYT 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 CA IYY . . . D 4 116.944 115.213 133.12 1 58.06 ? CA IYY 501 P 1 
HETATM 2 C CB IYY . . . D 4 116.235 116.372 133.811 1 58.06 ? CB IYY 501 P 1 
HETATM 3 O O3 IYY . . . D 4 125.152 116.113 132.251 1 58.06 ? O3 IYY 501 P 1 
HETATM 4 C C4 IYY . . . D 4 123.31 115.181 130.997 1 58.06 ? C4 IYY 501 P 1 
HETATM 5 C C5 IYY . . . D 4 124.419 116.203 131.232 1 58.06 ? C5 IYY 501 P 1 
HETATM 6 O O2 IYY . . . D 4 124.599 117.135 130.407 1 58.06 ? O2 IYY 501 P 1 
HETATM 7 N N1 IYY . . . D 4 123.744 113.877 131.466 1 58.06 ? N1 IYY 501 P 1 
HETATM 8 C C3 IYY . . . D 4 122.013 115.565 131.704 1 58.06 ? C3 IYY 501 P 1 
HETATM 9 S S1 IYY . . . D 4 120.607 114.841 130.811 1 58.06 ? S1 IYY 501 P 1 
HETATM 10 S SG IYY . . . D 4 119.227 114.037 132.176 1 58.06 ? SG IYY 501 P 1 
HETATM 11 C C1 IYY . . . D 4 118.462 115.378 133.131 1 58.06 ? C1 IYY 501 P 1 
HETATM 12 N N IYY . . . D 4 116.477 115.111 131.75 1 58.06 ? N IYY 501 P 1 
HETATM 13 O O IYY . . . D 4 116.263 117.522 133.302 1 58.06 ? O IYY 501 P 1 
HETATM 14 O OXT IYY . . . D 4 115.616 116.178 134.89 1 58.06 ? OXT IYY 501 P 1 
#
_model_server_stats.io_time_ms              71 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#