data_8RKD
#
_model_server_result.job_id            n11AkDHvsDxvc5WOpNQY6Q 
_model_server_result.datetime_utc      '2024-10-13 19:15:38' 
_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          8rkd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":701}' 
#
_entry.id    8RKD 
#
_exptl.entry_id    8RKD 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              238.305 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            8RKD 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8RKD 
_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    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,P,Q,R 
_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
? 3 H N N 
? 3 I N N 
? 3 M N N 
? 3 O 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 B OG1 THR 209 F THR 288 1_555 K MG MG . F MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc2 J O2B ADP . F ADP 702 1_555 K MG MG . F MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? 
metalc ? metalc3 E OG1 THR 209 C THR 288 1_555 Q MG MG . C MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
metalc ? metalc4 P O2B ADP . C ADP 702 1_555 Q MG MG . C MG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? 
#
_chem_comp.formula           'C8 H18 N2 O4 S' 
_chem_comp.formula_weight    238.305 
_chem_comp.id                EPE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     HEPES 
#
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
N1 C2 EPE sing 177 n n 
N1 C6 EPE sing 178 n n 
N1 C9 EPE sing 179 n n 
C2 C3 EPE sing 180 n n 
C2 H21 EPE sing 181 n n 
C2 H22 EPE sing 182 n n 
C3 N4 EPE sing 183 n n 
C3 H31 EPE sing 184 n n 
C3 H32 EPE sing 185 n n 
N4 C5 EPE sing 186 n n 
N4 C7 EPE sing 187 n n 
C5 C6 EPE sing 188 n n 
C5 H51 EPE sing 189 n n 
C5 H52 EPE sing 190 n n 
C6 H61 EPE sing 191 n n 
C6 H62 EPE sing 192 n n 
C7 C8 EPE sing 193 n n 
C7 H71 EPE sing 194 n n 
C7 H72 EPE sing 195 n n 
C8 O8 EPE sing 196 n n 
C8 H81 EPE sing 197 n n 
C8 H82 EPE sing 198 n n 
O8 HO8 EPE sing 199 n n 
C9 C10 EPE sing 200 n n 
C9 H91 EPE sing 201 n n 
C9 H92 EPE sing 202 n n 
C10 S EPE sing 203 n n 
C10 H101 EPE sing 204 n n 
C10 H102 EPE sing 205 n n 
S O1S EPE doub 206 n n 
S O2S EPE doub 207 n n 
S O3S EPE sing 208 n n 
O3S HOS3 EPE sing 209 n n 
#
_atom_sites.entry_id                     8RKD 
_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
G 2 ADP E 1 601 601 ADP ADP . 
H 3 EPE E 1 602 701 EPE EPE . 
I 3 EPE F 1 701 701 EPE EPE . 
J 2 ADP F 1 702 601 ADP ADP . 
K 4 MG F 1 703 801 MG MG . 
L 5 ANP A 1 601 601 ANP ANP . 
M 3 EPE B 1 701 701 EPE EPE . 
N 2 ADP B 1 702 601 ADP ADP . 
O 3 EPE C 1 701 701 EPE EPE . 
P 2 ADP C 1 702 601 ADP ADP . 
Q 4 MG C 1 703 801 MG MG . 
R 5 ANP D 1 601 601 ANP ANP . 
#
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 N1 EPE . . . M 3 180.193 205.865 150.553 1 20 ? N1 EPE 701 B 1 
HETATM 2 C C2 EPE . . . M 3 179.734 206.834 151.517 1 20 ? C2 EPE 701 B 1 
HETATM 3 C C3 EPE . . . M 3 180.911 207.287 152.349 1 20 ? C3 EPE 701 B 1 
HETATM 4 N N4 EPE . . . M 3 181.575 206.176 153.005 1 20 ? N4 EPE 701 B 1 
HETATM 5 C C5 EPE . . . M 3 181.042 204.86 152.679 1 20 ? C5 EPE 701 B 1 
HETATM 6 C C6 EPE . . . M 3 180.597 204.652 151.238 1 20 ? C6 EPE 701 B 1 
HETATM 7 C C7 EPE . . . M 3 181.733 206.356 154.439 1 20 ? C7 EPE 701 B 1 
HETATM 8 C C8 EPE . . . M 3 180.458 206.43 155.257 1 20 ? C8 EPE 701 B 1 
HETATM 9 O O8 EPE . . . M 3 180.761 206.846 156.569 1 20 ? O8 EPE 701 B 1 
HETATM 10 C C9 EPE . . . M 3 179.212 205.609 149.516 1 20 ? C9 EPE 701 B 1 
HETATM 11 C C10 EPE . . . M 3 179.8 204.876 148.32 1 20 ? C10 EPE 701 B 1 
HETATM 12 S S EPE . . . M 3 178.668 203.654 147.632 1 20 ? S EPE 701 B 1 
HETATM 13 O O1S EPE . . . M 3 179.462 202.908 146.638 1 20 ? O1S EPE 701 B 1 
HETATM 14 O O2S EPE . . . M 3 178.237 202.827 148.775 1 20 ? O2S EPE 701 B 1 
HETATM 15 O O3S EPE . . . M 3 177.566 204.426 147.024 1 20 ? O3S EPE 701 B 1 
HETATM 16 H H21 EPE . . . M 3 179.062 206.45 152.102 1 20 ? H21 EPE 701 B 1 
HETATM 17 H H22 EPE . . . M 3 179.328 207.602 151.084 1 20 ? H22 EPE 701 B 1 
HETATM 18 H H31 EPE . . . M 3 180.608 207.95 152.988 1 20 ? H31 EPE 701 B 1 
HETATM 19 H H32 EPE . . . M 3 181.536 207.736 151.758 1 20 ? H32 EPE 701 B 1 
HETATM 20 H H51 EPE . . . M 3 180.29 204.639 153.249 1 20 ? H51 EPE 701 B 1 
HETATM 21 H H52 EPE . . . M 3 181.729 204.204 152.876 1 20 ? H52 EPE 701 B 1 
HETATM 22 H H61 EPE . . . M 3 179.89 203.988 151.23 1 20 ? H61 EPE 701 B 1 
HETATM 23 H H62 EPE . . . M 3 181.341 204.262 150.751 1 20 ? H62 EPE 701 B 1 
HETATM 24 H H71 EPE . . . M 3 182.226 207.179 154.58 1 20 ? H71 EPE 701 B 1 
HETATM 25 H H72 EPE . . . M 3 182.278 205.651 154.823 1 20 ? H72 EPE 701 B 1 
HETATM 26 H H81 EPE . . . M 3 180.06 205.546 155.247 1 20 ? H81 EPE 701 B 1 
HETATM 27 H H82 EPE . . . M 3 179.812 207.02 154.839 1 20 ? H82 EPE 701 B 1 
HETATM 28 H HO8 EPE . . . M 3 181.606 206.856 156.654 1 20 ? HO8 EPE 701 B 1 
HETATM 29 H H91 EPE . . . M 3 178.514 205.057 149.904 1 20 ? H91 EPE 701 B 1 
HETATM 30 H H92 EPE . . . M 3 178.783 206.426 149.218 1 20 ? H92 EPE 701 B 1 
HETATM 31 H H101 EPE . . . M 3 180.024 205.483 147.597 1 20 ? H101 EPE 701 B 1 
HETATM 32 H H102 EPE . . . M 3 180.61 204.408 148.575 1 20 ? H102 EPE 701 B 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    39 
_model_server_stats.query_time_ms           271 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           32 
#