data_4TZ4
#
_model_server_result.job_id            98r9vkqaAW0ub8LIqLRCKw 
_model_server_result.datetime_utc      '2024-12-04 04:30:55' 
_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          4tz4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    4TZ4 
#
_exptl.entry_id    4TZ4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              259.261 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-Lenalidomide 
_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            4TZ4 
_cell.length_a            71.862 
_cell.length_b            129.117 
_cell.length_c            198.677 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4TZ4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 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,E,F 
_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                      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 17 A CYS 18 1_555 A SG CYS 312 A CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc1 B SG CYS 276 C CYS 323 1_555 C ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc2 B SG CYS 279 C CYS 326 1_555 C ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc3 B SG CYS 344 C CYS 391 1_555 C ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc4 B SG CYS 347 C CYS 394 1_555 C ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? 
#
_chem_comp.formula           'C13 H13 N3 O3' 
_chem_comp.formula_weight    259.261 
_chem_comp.id                LVY 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              S-Lenalidomide 
_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 C2 LVY sing 194 n n 
C1 C6 LVY sing 195 n n 
C1 N10 LVY sing 196 n n 
C2 C3 LVY sing 197 n n 
C3 C4 LVY sing 198 n n 
C4 N5 LVY sing 199 n n 
C4 O19 LVY doub 200 n n 
N5 C6 LVY sing 201 n n 
C6 O18 LVY doub 202 n n 
C7 C8 LVY sing 203 n y 
C7 C11 LVY sing 204 n n 
C7 C15 LVY doub 205 n y 
C8 C9 LVY sing 206 n n 
C8 C14 LVY doub 207 n y 
C9 N10 LVY sing 208 n n 
N10 C11 LVY sing 209 n n 
C11 O16 LVY doub 210 n n 
C12 C13 LVY doub 211 n y 
C12 C15 LVY sing 212 n y 
C13 C14 LVY sing 213 n y 
C14 N17 LVY sing 214 n n 
C1 H1 LVY sing 215 n n 
C2 H21C LVY sing 216 n n 
C2 H22C LVY sing 217 n n 
C3 H31C LVY sing 218 n n 
C3 H32C LVY sing 219 n n 
N5 H5 LVY sing 220 n n 
C15 H15 LVY sing 221 n n 
C9 H91 LVY sing 222 n n 
C9 H92 LVY sing 223 n n 
C12 H12 LVY sing 224 n n 
C13 H13 LVY sing 225 n n 
N17 H171 LVY sing 226 n n 
N17 H172 LVY sing 227 n n 
#
_atom_sites.entry_id                     4TZ4 
_atom_sites.fract_transf_matrix[1][1]    0.013916 
_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]    0.007745 
_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]    0.005033 
_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
C 3 ZN C 1 501 1 ZN ZN . 
D 4 LVY C 1 502 1 LVY MOL . 
E 5 HOH A 1 1201 10 HOH HOH . 
E 5 HOH A 2 1202 17 HOH HOH . 
E 5 HOH A 3 1203 1 HOH HOH . 
E 5 HOH A 4 1204 3 HOH HOH . 
E 5 HOH A 5 1205 4 HOH HOH . 
E 5 HOH A 6 1206 5 HOH HOH . 
E 5 HOH A 7 1207 6 HOH HOH . 
E 5 HOH A 8 1208 7 HOH HOH . 
E 5 HOH A 9 1209 8 HOH HOH . 
E 5 HOH A 10 1210 9 HOH HOH . 
E 5 HOH A 11 1211 11 HOH HOH . 
E 5 HOH A 12 1212 14 HOH HOH . 
E 5 HOH A 13 1213 15 HOH HOH . 
F 5 HOH C 1 601 16 HOH HOH . 
F 5 HOH C 2 602 12 HOH HOH . 
F 5 HOH C 3 603 2 HOH HOH . 
F 5 HOH C 4 604 13 HOH HOH . 
F 5 HOH C 5 605 18 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 LVY . . . D 4 -45.236 53.84 -95.126 1 37.08 ? C1 LVY 502 C 1 
HETATM 2 C C2 LVY . . . D 4 -46.732 53.556 -94.962 1 36.99 ? C2 LVY 502 C 1 
HETATM 3 C C3 LVY . . . D 4 -46.967 52.075 -94.678 1 37.64 ? C3 LVY 502 C 1 
HETATM 4 C C4 LVY . . . D 4 -46.325 51.213 -95.765 1 38.03 ? C4 LVY 502 C 1 
HETATM 5 N N5 LVY . . . D 4 -45.203 51.674 -96.477 1 37.47 ? N5 LVY 502 C 1 
HETATM 6 C C6 LVY . . . D 4 -44.64 52.933 -96.211 1 36.62 ? C6 LVY 502 C 1 
HETATM 7 C C7 LVY . . . D 4 -44.438 57.416 -95.246 1 38.67 ? C7 LVY 502 C 1 
HETATM 8 C C8 LVY . . . D 4 -45.036 57.325 -96.494 1 37.48 ? C8 LVY 502 C 1 
HETATM 9 C C9 LVY . . . D 4 -45.492 55.889 -96.717 1 36.64 ? C9 LVY 502 C 1 
HETATM 10 N N10 LVY . . . D 4 -45.044 55.256 -95.471 1 37.27 ? N10 LVY 502 C 1 
HETATM 11 C C11 LVY . . . D 4 -44.478 56.15 -94.664 1 38.22 ? C11 LVY 502 C 1 
HETATM 12 C C12 LVY . . . D 4 -44.04 59.758 -95.642 1 37.14 ? C12 LVY 502 C 1 
HETATM 13 C C13 LVY . . . D 4 -44.642 59.653 -96.895 1 37.28 ? C13 LVY 502 C 1 
HETATM 14 C C14 LVY . . . D 4 -45.143 58.43 -97.325 1 37.24 ? C14 LVY 502 C 1 
HETATM 15 C C15 LVY . . . D 4 -43.937 58.642 -94.817 1 38.49 ? C15 LVY 502 C 1 
HETATM 16 O O16 LVY . . . D 4 -44.003 55.882 -93.561 1 39.42 ? O16 LVY 502 C 1 
HETATM 17 N N17 LVY . . . D 4 -45.717 58.32 -98.517 1 39.09 ? N17 LVY 502 C 1 
HETATM 18 O O18 LVY . . . D 4 -43.649 53.301 -96.837 1 35.84 ? O18 LVY 502 C 1 
HETATM 19 O O19 LVY . . . D 4 -46.8 50.111 -96.019 1 38.93 ? O19 LVY 502 C 1 
#
_model_server_stats.io_time_ms              118 
_model_server_stats.parse_time_ms           183 
_model_server_stats.create_model_time_ms    166 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           19 
#