data_5YRO
#
_model_server_result.job_id            EPigCvW4-i4sTvKLoYfedw 
_model_server_result.datetime_utc      '2024-12-18 01:54:05' 
_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          5yro 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":303}' 
#
_entry.id    5YRO 
#
_exptl.entry_id    5YRO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_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            5YRO 
_cell.length_a            105.259 
_cell.length_b            105.259 
_cell.length_c            307.425 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YRO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      6 
_struct_asym.id                             F 
_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
metalc ? metalc1 A OG1 THR 24 A THR 24 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? 
metalc ? metalc2 D O2G GTP . A GTP 301 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? 
metalc ? metalc3 D O1B GTP . A GTP 301 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? 
metalc ? metalc4 E MG MG . A MG 302 1_555 M O HOH . A HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? 
metalc ? metalc5 E MG MG . A MG 302 1_555 M O HOH . A HOH 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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 O1 EDO sing 83 n n 
C1 C2 EDO sing 84 n n 
C1 H11 EDO sing 85 n n 
C1 H12 EDO sing 86 n n 
O1 HO1 EDO sing 87 n n 
C2 O2 EDO sing 88 n n 
C2 H21 EDO sing 89 n n 
C2 H22 EDO sing 90 n n 
O2 HO2 EDO sing 91 n n 
#
_atom_sites.entry_id                     5YRO 
_atom_sites.fract_transf_matrix[1][1]    0.0095 
_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]    0.0095 
_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]    0.003253 
_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
D 4 GTP A 1 301 1177 GTP GTP . 
E 5 MG A 1 302 302 MG MG . 
F 6 EDO A 1 303 303 EDO EDO . 
G 5 MG A 1 304 1 MG MG . 
H 7 GOL C 1 1101 1102 GOL GOL . 
I 8 CL C 1 1102 1104 CL CL . 
J 8 CL C 1 1103 1105 CL CL . 
K 8 CL C 1 1104 1106 CL CL . 
L 8 CL C 1 1105 1107 CL CL . 
M 9 HOH A 1 401 92 HOH HOH . 
M 9 HOH A 2 402 114 HOH HOH . 
M 9 HOH A 3 403 1 HOH HOH . 
M 9 HOH A 4 404 83 HOH HOH . 
M 9 HOH A 5 405 119 HOH HOH . 
M 9 HOH A 6 406 12 HOH HOH . 
M 9 HOH A 7 407 3 HOH HOH . 
M 9 HOH A 8 408 4 HOH HOH . 
M 9 HOH A 9 409 6 HOH HOH . 
M 9 HOH A 10 410 122 HOH HOH . 
M 9 HOH A 11 411 115 HOH HOH . 
M 9 HOH A 12 412 15 HOH HOH . 
M 9 HOH A 13 413 13 HOH HOH . 
M 9 HOH A 14 414 16 HOH HOH . 
M 9 HOH A 15 415 121 HOH HOH . 
M 9 HOH A 16 416 34 HOH HOH . 
M 9 HOH A 17 417 2 HOH HOH . 
M 9 HOH A 18 418 17 HOH HOH . 
M 9 HOH A 19 419 109 HOH HOH . 
M 9 HOH A 20 420 8 HOH HOH . 
M 9 HOH A 21 421 7 HOH HOH . 
M 9 HOH A 22 422 5 HOH HOH . 
M 9 HOH A 23 423 18 HOH HOH . 
M 9 HOH A 24 424 20 HOH HOH . 
M 9 HOH A 25 425 9 HOH HOH . 
M 9 HOH A 26 426 14 HOH HOH . 
M 9 HOH A 27 427 19 HOH HOH . 
M 9 HOH A 28 428 95 HOH HOH . 
M 9 HOH A 29 429 88 HOH HOH . 
N 9 HOH B 1 301 90 HOH HOH . 
N 9 HOH B 2 302 116 HOH HOH . 
N 9 HOH B 3 303 23 HOH HOH . 
N 9 HOH B 4 304 22 HOH HOH . 
N 9 HOH B 5 305 104 HOH HOH . 
N 9 HOH B 6 306 106 HOH HOH . 
N 9 HOH B 7 307 105 HOH HOH . 
N 9 HOH B 8 308 21 HOH HOH . 
N 9 HOH B 9 309 93 HOH HOH . 
N 9 HOH B 10 310 113 HOH HOH . 
N 9 HOH B 11 311 82 HOH HOH . 
O 9 HOH C 1 1201 40 HOH HOH . 
O 9 HOH C 2 1202 71 HOH HOH . 
O 9 HOH C 3 1203 47 HOH HOH . 
O 9 HOH C 4 1204 66 HOH HOH . 
O 9 HOH C 5 1205 11 HOH HOH . 
O 9 HOH C 6 1206 37 HOH HOH . 
O 9 HOH C 7 1207 96 HOH HOH . 
O 9 HOH C 8 1208 118 HOH HOH . 
O 9 HOH C 9 1209 86 HOH HOH . 
O 9 HOH C 10 1210 42 HOH HOH . 
O 9 HOH C 11 1211 43 HOH HOH . 
O 9 HOH C 12 1212 112 HOH HOH . 
O 9 HOH C 13 1213 100 HOH HOH . 
O 9 HOH C 14 1214 79 HOH HOH . 
O 9 HOH C 15 1215 54 HOH HOH . 
O 9 HOH C 16 1216 35 HOH HOH . 
O 9 HOH C 17 1217 41 HOH HOH . 
O 9 HOH C 18 1218 91 HOH HOH . 
O 9 HOH C 19 1219 58 HOH HOH . 
O 9 HOH C 20 1220 99 HOH HOH . 
O 9 HOH C 21 1221 49 HOH HOH . 
O 9 HOH C 22 1222 120 HOH HOH . 
O 9 HOH C 23 1223 107 HOH HOH . 
O 9 HOH C 24 1224 61 HOH HOH . 
O 9 HOH C 25 1225 52 HOH HOH . 
O 9 HOH C 26 1226 45 HOH HOH . 
O 9 HOH C 27 1227 84 HOH HOH . 
O 9 HOH C 28 1228 31 HOH HOH . 
O 9 HOH C 29 1229 97 HOH HOH . 
O 9 HOH C 30 1230 81 HOH HOH . 
O 9 HOH C 31 1231 110 HOH HOH . 
O 9 HOH C 32 1232 10 HOH HOH . 
O 9 HOH C 33 1233 85 HOH HOH . 
O 9 HOH C 34 1234 117 HOH HOH . 
O 9 HOH C 35 1235 89 HOH HOH . 
O 9 HOH C 36 1236 108 HOH HOH . 
O 9 HOH C 37 1237 27 HOH HOH . 
O 9 HOH C 38 1238 77 HOH HOH . 
O 9 HOH C 39 1239 59 HOH HOH . 
O 9 HOH C 40 1240 69 HOH HOH . 
O 9 HOH C 41 1241 36 HOH HOH . 
O 9 HOH C 42 1242 50 HOH HOH . 
O 9 HOH C 43 1243 38 HOH HOH . 
O 9 HOH C 44 1244 53 HOH HOH . 
O 9 HOH C 45 1245 29 HOH HOH . 
O 9 HOH C 46 1246 39 HOH HOH . 
O 9 HOH C 47 1247 67 HOH HOH . 
O 9 HOH C 48 1248 32 HOH HOH . 
O 9 HOH C 49 1249 28 HOH HOH . 
O 9 HOH C 50 1250 103 HOH HOH . 
O 9 HOH C 51 1251 56 HOH HOH . 
O 9 HOH C 52 1252 30 HOH HOH . 
O 9 HOH C 53 1253 111 HOH HOH . 
O 9 HOH C 54 1254 51 HOH HOH . 
O 9 HOH C 55 1255 44 HOH HOH . 
O 9 HOH C 56 1256 80 HOH HOH . 
O 9 HOH C 57 1257 46 HOH HOH . 
O 9 HOH C 58 1258 62 HOH HOH . 
O 9 HOH C 59 1259 101 HOH HOH . 
O 9 HOH C 60 1260 24 HOH HOH . 
O 9 HOH C 61 1261 26 HOH HOH . 
O 9 HOH C 62 1262 76 HOH HOH . 
O 9 HOH C 63 1263 65 HOH HOH . 
O 9 HOH C 64 1264 57 HOH HOH . 
O 9 HOH C 65 1265 25 HOH HOH . 
O 9 HOH C 66 1266 87 HOH HOH . 
O 9 HOH C 67 1267 75 HOH HOH . 
O 9 HOH C 68 1268 72 HOH HOH . 
O 9 HOH C 69 1269 55 HOH HOH . 
O 9 HOH C 70 1270 68 HOH HOH . 
O 9 HOH C 71 1271 70 HOH HOH . 
O 9 HOH C 72 1272 102 HOH HOH . 
O 9 HOH C 73 1273 73 HOH HOH . 
O 9 HOH C 74 1274 74 HOH HOH . 
O 9 HOH C 75 1275 98 HOH HOH . 
O 9 HOH C 76 1276 48 HOH HOH . 
O 9 HOH C 77 1277 33 HOH HOH . 
O 9 HOH C 78 1278 94 HOH HOH . 
O 9 HOH C 79 1279 78 HOH HOH . 
O 9 HOH C 80 1280 60 HOH HOH . 
O 9 HOH C 81 1281 64 HOH HOH . 
O 9 HOH C 82 1282 63 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 EDO . . . F 6 3.593 28.861 37.039 1 84.56 ? C1 EDO 303 A 1 
HETATM 2 O O1 EDO . . . F 6 2.609 29.859 36.721 1 82.89 ? O1 EDO 303 A 1 
HETATM 3 C C2 EDO . . . F 6 4.969 29.508 37.144 1 86.43 ? C2 EDO 303 A 1 
HETATM 4 O O2 EDO . . . F 6 4.949 30.395 38.275 1 88.85 ? O2 EDO 303 A 1 
#
_model_server_stats.io_time_ms              125 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           399 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           4 
#