data_7D4F
#
_model_server_result.job_id            2RtCjXl0oLvy80tIl2hGmA 
_model_server_result.datetime_utc      '2024-11-21 09:07:42' 
_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          7d4f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1004}' 
#
_entry.id    7D4F 
#
_exptl.entry_id    7D4F 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              635.643 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '8-(3-(3-aminobenzamido)-4-methylbenzamido)naphthalene-1,3,5-trisulfonic acid' 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 G N N 
? 5 H N 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 D ND1 HIS 296 A HIS 295 1_555 E ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc2 D SG CYS 302 A CYS 301 1_555 E ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc3 D SG CYS 307 A CYS 306 1_555 E ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? 
metalc ? metalc4 D SG CYS 311 A CYS 310 1_555 E ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc5 D SG CYS 488 A CYS 487 1_555 F ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc6 D SG CYS 646 A CYS 645 1_555 F ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc7 D SG CYS 647 A CYS 646 1_555 F ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? 
#
_chem_comp.formula           'C25 H21 N3 O11 S3' 
_chem_comp.formula_weight    635.643 
_chem_comp.id                H3U 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '8-(3-(3-aminobenzamido)-4-methylbenzamido)naphthalene-1,3,5-trisulfonic 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
O32 C26 H3U doub 129 n n 
O4 C2 H3U doub 130 n n 
O30 S21 H3U doub 131 n n 
C26 C33 H3U sing 132 n n 
C26 N19 H3U sing 133 n n 
C33 C38 H3U doub 134 n y 
C33 C37 H3U sing 135 n y 
C38 C40 H3U sing 136 n y 
C37 C39 H3U doub 137 n y 
C40 C42 H3U doub 138 n y 
C12 C7 H3U doub 139 n y 
C12 C15 H3U sing 140 n y 
C7 C3 H3U sing 141 n y 
C39 C42 H3U sing 142 n y 
C39 N41 H3U sing 143 n n 
C2 C5 H3U sing 144 n n 
C2 N1 H3U sing 145 n n 
C5 C9 H3U doub 146 n y 
C5 C8 H3U sing 147 n y 
C9 C14 H3U sing 148 n y 
C8 C13 H3U doub 149 n y 
C13 C20 H3U sing 150 n y 
C13 N19 H3U sing 151 n n 
C14 C20 H3U doub 152 n y 
C20 C27 H3U sing 153 n n 
S21 O29 H3U doub 154 n n 
S21 C15 H3U sing 155 n n 
S21 O28 H3U sing 156 n n 
C15 C10 H3U doub 157 n y 
N1 C3 H3U sing 158 n n 
C3 C6 H3U doub 159 n y 
O25 S17 H3U doub 160 n n 
C10 C6 H3U sing 161 n y 
C10 C16 H3U sing 162 n y 
C6 C11 H3U sing 163 n y 
C16 C22 H3U doub 164 n y 
C11 S17 H3U sing 165 n n 
C11 C18 H3U doub 166 n y 
S17 O23 H3U doub 167 n n 
S17 O24 H3U sing 168 n n 
C22 C18 H3U sing 169 n y 
C22 S31 H3U sing 170 n n 
O34 S31 H3U doub 171 n n 
S31 O35 H3U doub 172 n n 
S31 O36 H3U sing 173 n n 
C18 H1 H3U sing 174 n n 
C16 H2 H3U sing 175 n n 
C12 H3 H3U sing 176 n n 
C7 H4 H3U sing 177 n n 
N1 H5 H3U sing 178 n n 
C8 H6 H3U sing 179 n n 
C9 H7 H3U sing 180 n n 
C14 H8 H3U sing 181 n n 
C27 H9 H3U sing 182 n n 
C27 H10 H3U sing 183 n n 
C27 H11 H3U sing 184 n n 
N19 H12 H3U sing 185 n n 
C37 H13 H3U sing 186 n n 
C38 H14 H3U sing 187 n n 
C40 H15 H3U sing 188 n n 
C42 H16 H3U sing 189 n n 
N41 H17 H3U sing 190 n n 
N41 H18 H3U sing 191 n n 
O36 H19 H3U sing 192 n n 
O24 H20 H3U sing 193 n n 
O28 H21 H3U sing 194 n n 
#
_atom_sites.entry_id                     7D4F 
_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 
#
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
E 4 ZN A 1 1001 1001 ZN ZN . 
F 4 ZN A 1 1002 1002 ZN ZN . 
G 5 H3U A 1 1003 1201 H3U LIG . 
H 5 H3U A 1 1004 1301 H3U LIG . 
#
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 O O35 H3U . . . H 5 138.042 125.763 147.626 1 73.98 ? O35 H3U 1004 A 1 
HETATM 2 S S31 H3U . . . H 5 137.09 126.987 148.205 1 73.98 ? S31 H3U 1004 A 1 
HETATM 3 O O36 H3U . . . H 5 137.562 127.389 149.739 1 73.98 ? O36 H3U 1004 A 1 
HETATM 4 O O34 H3U . . . H 5 137.234 128.313 147.226 1 73.98 ? O34 H3U 1004 A 1 
HETATM 5 C C22 H3U . . . H 5 135.344 126.43 148.256 1 73.98 ? C22 H3U 1004 A 1 
HETATM 6 C C18 H3U . . . H 5 135.055 125.16 148.782 1 73.98 ? C18 H3U 1004 A 1 
HETATM 7 C C11 H3U . . . H 5 133.736 124.705 148.841 1 73.98 ? C11 H3U 1004 A 1 
HETATM 8 S S17 H3U . . . H 5 133.426 123.039 149.535 1 73.98 ? S17 H3U 1004 A 1 
HETATM 9 O O23 H3U . . . H 5 132.481 123.158 150.881 1 73.98 ? O23 H3U 1004 A 1 
HETATM 10 O O24 H3U . . . H 5 132.682 122.065 148.425 1 73.98 ? O24 H3U 1004 A 1 
HETATM 11 O O25 H3U . . . H 5 134.875 122.366 149.95 1 73.98 ? O25 H3U 1004 A 1 
HETATM 12 C C16 H3U . . . H 5 134.309 127.254 147.789 1 73.98 ? C16 H3U 1004 A 1 
HETATM 13 C C10 H3U . . . H 5 132.95 126.791 147.845 1 73.98 ? C10 H3U 1004 A 1 
HETATM 14 C C15 H3U . . . H 5 131.882 127.63 147.364 1 73.98 ? C15 H3U 1004 A 1 
HETATM 15 S S21 H3U . . . H 5 132.228 129.307 146.673 1 73.98 ? S21 H3U 1004 A 1 
HETATM 16 O O28 H3U . . . H 5 131.012 129.736 145.629 1 73.98 ? O28 H3U 1004 A 1 
HETATM 17 O O29 H3U . . . H 5 132.274 130.386 147.922 1 73.98 ? O29 H3U 1004 A 1 
HETATM 18 O O30 H3U . . . H 5 133.684 129.318 145.876 1 73.98 ? O30 H3U 1004 A 1 
HETATM 19 C C12 H3U . . . H 5 130.555 127.182 147.42 1 73.98 ? C12 H3U 1004 A 1 
HETATM 20 C C7 H3U . . . H 5 130.265 125.91 147.945 1 73.98 ? C7 H3U 1004 A 1 
HETATM 21 C C6 H3U . . . H 5 132.667 125.546 148.36 1 73.98 ? C6 H3U 1004 A 1 
HETATM 22 C C3 H3U . . . H 5 131.298 125.089 148.403 1 73.98 ? C3 H3U 1004 A 1 
HETATM 23 N N1 H3U . . . H 5 130.958 123.77 148.971 1 73.98 ? N1 H3U 1004 A 1 
HETATM 24 C C2 H3U . . . H 5 129.991 123.837 150.083 1 73.98 ? C2 H3U 1004 A 1 
HETATM 25 O O4 H3U . . . H 5 129.577 124.895 150.416 1 73.98 ? O4 H3U 1004 A 1 
HETATM 26 C C5 H3U . . . H 5 129.494 122.571 150.848 1 73.98 ? C5 H3U 1004 A 1 
HETATM 27 C C8 H3U . . . H 5 128.269 122.656 151.531 1 73.98 ? C8 H3U 1004 A 1 
HETATM 28 C C9 H3U . . . H 5 130.235 121.383 150.879 1 73.98 ? C9 H3U 1004 A 1 
HETATM 29 C C14 H3U . . . H 5 129.73 120.274 151.596 1 73.98 ? C14 H3U 1004 A 1 
HETATM 30 C C20 H3U . . . H 5 128.503 120.356 152.276 1 73.98 ? C20 H3U 1004 A 1 
HETATM 31 C C27 H3U . . . H 5 127.962 119.124 153.06 1 73.98 ? C27 H3U 1004 A 1 
HETATM 32 C C13 H3U . . . H 5 127.769 121.56 152.244 1 73.98 ? C13 H3U 1004 A 1 
HETATM 33 N N19 H3U . . . H 5 126.46 121.725 152.929 1 73.98 ? N19 H3U 1004 A 1 
HETATM 34 C C26 H3U . . . H 5 125.296 120.916 152.499 1 73.98 ? C26 H3U 1004 A 1 
HETATM 35 O O32 H3U . . . H 5 125.412 120.134 151.623 1 73.98 ? O32 H3U 1004 A 1 
HETATM 36 C C33 H3U . . . H 5 123.919 121.117 153.197 1 73.98 ? C33 H3U 1004 A 1 
HETATM 37 C C37 H3U . . . H 5 122.746 120.866 152.479 1 73.98 ? C37 H3U 1004 A 1 
HETATM 38 C C38 H3U . . . H 5 123.854 121.571 154.502 1 73.98 ? C38 H3U 1004 A 1 
HETATM 39 C C40 H3U . . . H 5 122.61 121.761 155.109 1 73.98 ? C40 H3U 1004 A 1 
HETATM 40 C C42 H3U . . . H 5 121.436 121.503 154.397 1 73.98 ? C42 H3U 1004 A 1 
HETATM 41 C C39 H3U . . . H 5 121.502 121.056 153.085 1 73.98 ? C39 H3U 1004 A 1 
HETATM 42 N N41 H3U . . . H 5 120.27 120.783 152.333 1 73.98 ? N41 H3U 1004 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           238 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           42 
#