data_5YLV
#
_model_server_result.job_id            AzD2WpZdhsLZgizOzKqdcA 
_model_server_result.datetime_utc      '2024-11-15 03:17:56' 
_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          5ylv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":305}' 
#
_entry.id    5YLV 
#
_exptl.entry_id    5YLV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              538.755 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'O-DODECANYL OCTAETHYLENE GLYCOL' 
_entity.pdbx_number_of_molecules    2 
_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         120 
_cell.entry_id            5YLV 
_cell.length_a            105.05 
_cell.length_b            105.05 
_cell.length_c            368.54 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YLV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    'P 31 2"' 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_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,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
? 5 E N N 
? 5 M 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
disulf ? disulf1 B SG CYS 130 B CYS 131 1_555 B SG CYS 151 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf2 B SG CYS 161 B CYS 162 1_555 B SG CYS 177 B CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf3 B SG CYS 200 B CYS 201 1_555 B SG CYS 261 B CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
covale ? covale1 A C SER 385 A SER 384 1_555 A N BFD 386 A BFD 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 A C BFD 386 A BFD 385 1_555 A N LYS 387 A LYS 386 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.31 ? 
covale ? covale3 B ND2 ASN 98 B ASN 99 1_555 I C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale4 B ND2 ASN 129 B ASN 130 1_555 J C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.493 ? 
covale ? covale5 B OE1 GLN 138 B GLN 139 1_555 B CG LYS 148 B LYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.129 ? 
covale ? covale6 B OE1 GLN 138 B GLN 139 1_555 B CD LYS 148 B LYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.495 ? 
covale ? covale7 B ND2 ASN 160 B ASN 161 1_555 K C1 NAG . B NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
metalc ? metalc1 A O ASP 184 A ASP 183 1_555 H RB RB . A RB 1106 6_655 ? ? ? ? ? ? ? ? ? ? ? ? 3.068 ? 
metalc ? metalc2 A OD2 ASP 186 A ASP 185 1_555 H RB RB . A RB 1106 6_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? 
metalc ? metalc3 A O VAL 342 A VAL 341 1_555 F RB RB . A RB 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.888 ? 
metalc ? metalc4 A OD2 BFD 386 A BFD 385 1_555 D MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? 
metalc ? metalc5 A O THR 388 A THR 387 1_555 D MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? 
metalc ? metalc6 A O SER 409 A SER 408 1_555 H RB RB . A RB 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.868 ? 
metalc ? metalc7 A OG SER 409 A SER 408 1_555 H RB RB . A RB 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.946 ? 
metalc ? metalc8 A O GLN 419 A GLN 418 1_555 H RB RB . A RB 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.166 ? 
metalc ? metalc9 A O THR 420 A THR 419 1_555 H RB RB . A RB 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? 
metalc ? metalc10 A OD1 ASP 727 A ASP 726 1_555 D MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? 
metalc ? metalc11 A O LYS 736 A LYS 735 1_555 G RB RB . A RB 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? 
metalc ? metalc12 A O ALA 738 A ALA 737 1_555 G RB RB . A RB 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.921 ? 
metalc ? metalc13 A OD1 ASP 757 A ASP 756 1_555 G RB RB . A RB 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? 
#
_chem_comp.formula           'C28 H58 O9' 
_chem_comp.formula_weight    538.755 
_chem_comp.id                CE1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'O-DODECANYL OCTAETHYLENE GLYCOL' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     THESIT 
#
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 CE1 sing 126 n n 
C1 H11 CE1 sing 127 n n 
C1 H12 CE1 sing 128 n n 
C1 H13 CE1 sing 129 n n 
C2 C3 CE1 sing 130 n n 
C2 H21 CE1 sing 131 n n 
C2 H22 CE1 sing 132 n n 
C3 C4 CE1 sing 133 n n 
C3 H31 CE1 sing 134 n n 
C3 H32 CE1 sing 135 n n 
C4 C5 CE1 sing 136 n n 
C4 H41 CE1 sing 137 n n 
C4 H42 CE1 sing 138 n n 
C5 C6 CE1 sing 139 n n 
C5 H51 CE1 sing 140 n n 
C5 H52 CE1 sing 141 n n 
C6 C7 CE1 sing 142 n n 
C6 H61 CE1 sing 143 n n 
C6 H62 CE1 sing 144 n n 
C7 C8 CE1 sing 145 n n 
C7 H71 CE1 sing 146 n n 
C7 H72 CE1 sing 147 n n 
C8 C9 CE1 sing 148 n n 
C8 H81 CE1 sing 149 n n 
C8 H82 CE1 sing 150 n n 
C9 C10 CE1 sing 151 n n 
C9 H91 CE1 sing 152 n n 
C9 H92 CE1 sing 153 n n 
C10 C11 CE1 sing 154 n n 
C10 H101 CE1 sing 155 n n 
C10 H102 CE1 sing 156 n n 
C11 C12 CE1 sing 157 n n 
C11 H111 CE1 sing 158 n n 
C11 H112 CE1 sing 159 n n 
C12 O13 CE1 sing 160 n n 
C12 H121 CE1 sing 161 n n 
C12 H122 CE1 sing 162 n n 
O13 C14 CE1 sing 163 n n 
C14 C15 CE1 sing 164 n n 
C14 H141 CE1 sing 165 n n 
C14 H142 CE1 sing 166 n n 
C15 O16 CE1 sing 167 n n 
C15 H151 CE1 sing 168 n n 
C15 H152 CE1 sing 169 n n 
O16 C17 CE1 sing 170 n n 
C17 C18 CE1 sing 171 n n 
C17 H171 CE1 sing 172 n n 
C17 H172 CE1 sing 173 n n 
C18 O19 CE1 sing 174 n n 
C18 H181 CE1 sing 175 n n 
C18 H182 CE1 sing 176 n n 
O19 C20 CE1 sing 177 n n 
C20 C21 CE1 sing 178 n n 
C20 H201 CE1 sing 179 n n 
C20 H202 CE1 sing 180 n n 
C21 O22 CE1 sing 181 n n 
C21 H211 CE1 sing 182 n n 
C21 H212 CE1 sing 183 n n 
O22 C23 CE1 sing 184 n n 
C23 C24 CE1 sing 185 n n 
C23 H231 CE1 sing 186 n n 
C23 H232 CE1 sing 187 n n 
C24 O25 CE1 sing 188 n n 
C24 H241 CE1 sing 189 n n 
C24 H242 CE1 sing 190 n n 
O25 C26 CE1 sing 191 n n 
C26 C27 CE1 sing 192 n n 
C26 H261 CE1 sing 193 n n 
C26 H262 CE1 sing 194 n n 
C27 O28 CE1 sing 195 n n 
C27 H271 CE1 sing 196 n n 
C27 H272 CE1 sing 197 n n 
O28 C29 CE1 sing 198 n n 
C29 C30 CE1 sing 199 n n 
C29 H291 CE1 sing 200 n n 
C29 H292 CE1 sing 201 n n 
C30 O31 CE1 sing 202 n n 
C30 H301 CE1 sing 203 n n 
C30 H302 CE1 sing 204 n n 
O31 C32 CE1 sing 205 n n 
C32 C33 CE1 sing 206 n n 
C32 H321 CE1 sing 207 n n 
C32 H322 CE1 sing 208 n n 
C33 O34 CE1 sing 209 n n 
C33 H331 CE1 sing 210 n n 
C33 H332 CE1 sing 211 n n 
O34 C35 CE1 sing 212 n n 
C35 C36 CE1 sing 213 n n 
C35 H351 CE1 sing 214 n n 
C35 H352 CE1 sing 215 n n 
C36 O37 CE1 sing 216 n n 
C36 H361 CE1 sing 217 n n 
C36 H362 CE1 sing 218 n n 
O37 H37 CE1 sing 219 n n 
#
_atom_sites.entry_id                     5YLV 
_atom_sites.fract_transf_matrix[1][1]    0.009519 
_atom_sites.fract_transf_matrix[1][2]    0.005496 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010992 
_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]    0.002713 
_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 8WX A 1 1101 1101 8WX 8WX . 
D 4 MG A 1 1102 1102 MG MG . 
E 5 CE1 A 1 1103 1103 CE1 CE1 . 
F 6 RB A 1 1104 1104 RB RB . 
G 6 RB A 1 1105 1105 RB RB . 
H 6 RB A 1 1106 1106 RB RB . 
I 7 NAG B 1 301 301 NAG NAG . 
J 7 NAG B 1 302 302 NAG NAG . 
K 7 NAG B 1 303 303 NAG NAG . 
L 8 PCW B 1 304 304 PCW PCW . 
M 5 CE1 B 1 305 305 CE1 CE1 . 
N 9 HOH A 1 1201 1201 HOH HOH . 
N 9 HOH A 2 1202 1202 HOH HOH . 
N 9 HOH A 3 1203 1203 HOH HOH . 
N 9 HOH A 4 1204 1204 HOH HOH . 
N 9 HOH A 5 1205 1205 HOH HOH . 
N 9 HOH A 6 1206 1206 HOH HOH . 
N 9 HOH A 7 1207 1207 HOH HOH . 
N 9 HOH A 8 1208 1208 HOH HOH . 
N 9 HOH A 9 1209 1209 HOH HOH . 
N 9 HOH A 10 1210 1210 HOH HOH . 
N 9 HOH A 11 1211 1211 HOH HOH . 
N 9 HOH A 12 1212 1212 HOH HOH . 
N 9 HOH A 13 1213 1213 HOH HOH . 
N 9 HOH A 14 1214 1214 HOH HOH . 
N 9 HOH A 15 1215 1215 HOH HOH . 
N 9 HOH A 16 1216 1216 HOH HOH . 
N 9 HOH A 17 1217 1217 HOH HOH . 
N 9 HOH A 18 1218 1218 HOH HOH . 
N 9 HOH A 19 1219 1219 HOH HOH . 
N 9 HOH A 20 1220 1220 HOH HOH . 
N 9 HOH A 21 1221 1221 HOH HOH . 
N 9 HOH A 22 1222 1222 HOH HOH . 
O 9 HOH B 1 401 401 HOH HOH . 
O 9 HOH B 2 402 402 HOH HOH . 
O 9 HOH B 3 403 403 HOH HOH . 
O 9 HOH B 4 404 404 HOH HOH . 
O 9 HOH B 5 405 405 HOH HOH . 
O 9 HOH B 6 406 406 HOH HOH . 
O 9 HOH B 7 407 407 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 CE1 . . . M 5 55.274 12.019 -10.435 1 86.5 ? C1 CE1 305 B 1 
HETATM 2 C C2 CE1 . . . M 5 54.382 11.218 -11.348 1 83.02 ? C2 CE1 305 B 1 
HETATM 3 C C3 CE1 . . . M 5 55.212 10.504 -12.405 1 84.8 ? C3 CE1 305 B 1 
HETATM 4 C C4 CE1 . . . M 5 55.938 11.458 -13.351 1 89.5 ? C4 CE1 305 B 1 
HETATM 5 C C5 CE1 . . . M 5 57.423 11.614 -13.014 1 89.6 ? C5 CE1 305 B 1 
HETATM 6 C C6 CE1 . . . M 5 58.301 11.318 -14.224 1 87.27 ? C6 CE1 305 B 1 
HETATM 7 C C7 CE1 . . . M 5 59.678 11.952 -14.067 1 94.24 ? C7 CE1 305 B 1 
HETATM 8 C C8 CE1 . . . M 5 60.655 11.396 -15.096 1 91.05 ? C8 CE1 305 B 1 
HETATM 9 C C9 CE1 . . . M 5 62.04 11.279 -14.482 1 94.85 ? C9 CE1 305 B 1 
HETATM 10 C C10 CE1 . . . M 5 63.027 12.254 -15.107 1 97.79 ? C10 CE1 305 B 1 
HETATM 11 C C11 CE1 . . . M 5 64.354 11.524 -15.259 1 97.58 ? C11 CE1 305 B 1 
HETATM 12 C C12 CE1 . . . M 5 65.399 12.306 -16.034 1 94.82 ? C12 CE1 305 B 1 
HETATM 13 O O13 CE1 . . . M 5 64.879 12.769 -17.284 1 96.3 ? O13 CE1 305 B 1 
HETATM 14 C C14 CE1 . . . M 5 65.465 12.106 -18.413 1 97.64 ? C14 CE1 305 B 1 
HETATM 15 C C15 CE1 . . . M 5 66.829 12.676 -18.827 1 96.96 ? C15 CE1 305 B 1 
HETATM 16 O O16 CE1 . . . M 5 67.838 12.296 -17.881 1 101.64 ? O16 CE1 305 B 1 
HETATM 17 C C17 CE1 . . . M 5 68.35 10.981 -18.131 1 99.83 ? C17 CE1 305 B 1 
HETATM 18 C C18 CE1 . . . M 5 68.353 10.181 -16.824 1 95.81 ? C18 CE1 305 B 1 
HETATM 19 O O19 CE1 . . . M 5 68.886 8.878 -17.055 1 94.85 ? O19 CE1 305 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           19 
#