data_6RUQ
#
_model_server_result.job_id            PQCbTiZHl8GgW97qLfLXcQ 
_model_server_result.datetime_utc      '2024-11-28 20:29:15' 
_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          6ruq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":901}' 
#
_entry.id    6RUQ 
#
_exptl.entry_id    6RUQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              352.387 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (8R)-5-(4-aminophenyl)-N,8-dimethyl-8,9-dihydro-2H,7H-[1,3]dioxolo[4,5-h][2,3]benzodiazepine-7-carboxamide 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.264 
_cell.angle_gamma         90 
_cell.entry_id            6RUQ 
_cell.length_a            91.773 
_cell.length_b            306.596 
_cell.length_c            107.728 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RUQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    'P 2yb' 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,L,M,N,O 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 H N N 
? 4 J N N 
? 4 L N N 
? 4 N N N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
2 oligosaccharide 
3 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
4 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
5 ? 3 4 3 BMA BMA C1 O1 . O3 HO3 . sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
2 n E NAG 1 E 1 NAG H 834 NAG 
2 n E NAG 2 E 2 NAG H 835 NAG 
2 n E BMA 3 E 3 BMA H 836 BMA 
3 n F NAG 1 F 1 NAG G 834 NAG 
3 n F NAG 2 F 2 NAG G 835 NAG 
3 n F BMA 3 F 3 BMA G 836 BMA 
3 n F BMA 4 F 4 BMA G 837 BMA 
2 n G NAG 1 G 1 NAG I 834 NAG 
2 n G NAG 2 G 2 NAG I 835 NAG 
2 n G BMA 3 G 3 BMA I 836 BMA 
#
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 54 A CYS 63 1_555 A SG CYS 306 A CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf2 A SG CYS 709 A CYS 718 1_555 A SG CYS 764 A CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf3 B SG CYS 54 B CYS 63 1_555 B SG CYS 306 B CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf4 B SG CYS 709 B CYS 718 1_555 B SG CYS 764 B CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf5 C SG CYS 54 C CYS 63 1_555 C SG CYS 306 C CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf6 C SG CYS 709 C CYS 718 1_555 C SG CYS 764 C CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf7 D SG CYS 54 D CYS 63 1_555 D SG CYS 306 D CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf8 D SG CYS 709 D CYS 718 1_555 D SG CYS 764 D CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A ND2 ASN 346 A ASN 355 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
covale ? covale2 B ND2 ASN 346 B ASN 355 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale3 C ND2 ASN 346 C ASN 355 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale5 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? 
covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 
covale ? covale7 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
covale ? covale8 F O3 BMA . F BMA 3 1_555 F C1 BMA . F BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale9 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale10 G O4 NAG . G NAG 2 1_555 G C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? 
#
_chem_comp.formula           'C19 H20 N4 O3' 
_chem_comp.formula_weight    352.387 
_chem_comp.id                GYK 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (8R)-5-(4-aminophenyl)-N,8-dimethyl-8,9-dihydro-2H,7H-[1,3]dioxolo[4,5-h][2,3]benzodiazepine-7-carboxamide 
_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
N23 C20 GYK sing 153 n n 
C20 C21 GYK doub 154 n y 
C20 C19 GYK sing 155 n y 
C21 C22 GYK sing 156 n y 
C19 C18 GYK doub 157 n y 
O24 C25 GYK sing 158 n n 
O24 C07 GYK sing 159 n n 
C25 O26 GYK sing 160 n n 
C22 C17 GYK doub 161 n y 
C18 C17 GYK sing 162 n y 
C07 C08 GYK doub 163 n y 
C07 C06 GYK sing 164 n y 
C08 C09 GYK sing 165 n y 
C17 C10 GYK sing 166 n n 
O26 C06 GYK sing 167 n n 
C06 C05 GYK doub 168 n y 
C09 C10 GYK sing 169 n n 
C09 C04 GYK doub 170 n y 
C10 N11 GYK doub 171 n n 
C05 C04 GYK sing 172 n y 
C04 C03 GYK sing 173 n n 
N11 N12 GYK sing 174 n n 
C03 C02 GYK sing 175 n n 
N12 C02 GYK sing 176 n n 
N12 C13 GYK sing 177 n n 
N15 C13 GYK sing 178 n n 
N15 C16 GYK sing 179 n n 
C01 C02 GYK sing 180 n n 
C13 O14 GYK doub 181 n n 
C01 H1 GYK sing 182 n n 
C01 H2 GYK sing 183 n n 
C01 H3 GYK sing 184 n n 
C02 H4 GYK sing 185 n n 
C03 H5 GYK sing 186 n n 
C03 H6 GYK sing 187 n n 
C05 H7 GYK sing 188 n n 
C08 H8 GYK sing 189 n n 
N15 H11 GYK sing 190 n n 
C16 H12 GYK sing 191 n n 
C16 H13 GYK sing 192 n n 
C16 H14 GYK sing 193 n n 
C18 H15 GYK sing 194 n n 
C19 H16 GYK sing 195 n n 
C21 H17 GYK sing 196 n n 
C22 H18 GYK sing 197 n n 
N23 H19 GYK sing 198 n n 
N23 H20 GYK sing 199 n n 
C25 H21 GYK sing 200 n n 
C25 H9 GYK sing 201 n n 
#
_atom_sites.entry_id                     6RUQ 
_atom_sites.fract_transf_matrix[1][1]    0.010896 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000812 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.003262 
_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]    0.009308 
_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
H 4 GYK A 1 901 1 GYK GYK . 
I 5 ZK1 A 1 902 2 ZK1 ZK1 . 
J 4 GYK B 1 901 3 GYK GYK . 
K 5 ZK1 B 1 902 3 ZK1 ZK1 . 
L 4 GYK C 1 901 2 GYK GYK . 
M 5 ZK1 C 1 902 1 ZK1 ZK1 . 
N 4 GYK D 1 901 4 GYK GYK . 
O 5 ZK1 D 1 902 4 ZK1 ZK1 . 
#
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 C01 GYK . . . L 4 -60.575 -29.157 1.206 1 221.27 ? C01 GYK 901 C 1 
HETATM 2 C C02 GYK . . . L 4 -60.707 -29.365 -0.311 1 218.01 ? C02 GYK 901 C 1 
HETATM 3 C C03 GYK . . . L 4 -59.671 -30.392 -0.773 1 219.26 ? C03 GYK 901 C 1 
HETATM 4 C C04 GYK . . . L 4 -58.255 -30.091 -0.253 1 218.95 ? C04 GYK 901 C 1 
HETATM 5 C C05 GYK . . . L 4 -57.674 -31.116 0.56 1 220.14 ? C05 GYK 901 C 1 
HETATM 6 C C06 GYK . . . L 4 -56.375 -30.942 1.087 1 217.17 ? C06 GYK 901 C 1 
HETATM 7 C C07 GYK . . . L 4 -55.667 -29.76 0.805 1 213.16 ? C07 GYK 901 C 1 
HETATM 8 C C08 GYK . . . L 4 -56.249 -28.742 -0.007 1 208.03 ? C08 GYK 901 C 1 
HETATM 9 C C09 GYK . . . L 4 -57.56 -28.905 -0.545 1 212.32 ? C09 GYK 901 C 1 
HETATM 10 C C10 GYK . . . L 4 -58.212 -27.785 -1.445 1 217.38 ? C10 GYK 901 C 1 
HETATM 11 N N11 GYK . . . L 4 -59.393 -27.228 -0.808 1 215.35 ? N11 GYK 901 C 1 
HETATM 12 N N12 GYK . . . L 4 -60.485 -28.095 -0.974 1 214.76 ? N12 GYK 901 C 1 
HETATM 13 C C13 GYK . . . L 4 -61.508 -27.702 -1.931 1 213.59 ? C13 GYK 901 C 1 
HETATM 14 O O14 GYK . . . L 4 -62.443 -28.405 -2.109 1 205.04 ? O14 GYK 901 C 1 
HETATM 15 N N15 GYK . . . L 4 -61.392 -26.456 -2.662 1 222.54 ? N15 GYK 901 C 1 
HETATM 16 C C16 GYK . . . L 4 -62.429 -26.084 -3.608 1 222.83 ? C16 GYK 901 C 1 
HETATM 17 C C17 GYK . . . L 4 -57.36 -26.659 -2.018 1 229.57 ? C17 GYK 901 C 1 
HETATM 18 C C18 GYK . . . L 4 -57.451 -26.412 -3.383 1 237.17 ? C18 GYK 901 C 1 
HETATM 19 C C19 GYK . . . L 4 -56.711 -25.4 -3.971 1 236.46 ? C19 GYK 901 C 1 
HETATM 20 C C20 GYK . . . L 4 -55.871 -24.616 -3.198 1 231.02 ? C20 GYK 901 C 1 
HETATM 21 C C21 GYK . . . L 4 -55.778 -24.847 -1.837 1 233.85 ? C21 GYK 901 C 1 
HETATM 22 C C22 GYK . . . L 4 -56.525 -25.858 -1.251 1 233.85 ? C22 GYK 901 C 1 
HETATM 23 N N23 GYK . . . L 4 -55.096 -23.556 -3.81 1 216.77 ? N23 GYK 901 C 1 
HETATM 24 O O24 GYK . . . L 4 -54.457 -29.912 1.461 1 221.87 ? O24 GYK 901 C 1 
HETATM 25 C C25 GYK . . . L 4 -54.415 -31.074 2.091 1 225.07 ? C25 GYK 901 C 1 
HETATM 26 O O26 GYK . . . L 4 -55.549 -31.72 1.89 1 222.16 ? O26 GYK 901 C 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    38 
_model_server_stats.query_time_ms           248 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           26 
#