data_8ITR # _model_server_result.job_id 34rg9RL91Bm7-Wn8Mkz5sQ _model_server_result.datetime_utc '2024-11-27 04:13:08' _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 8itr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":603}' # _entry.id 8ITR # _exptl.entry_id 8ITR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 468.585 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[1-MYRISTOYL-GLYCEROL-3-YL]PHOSPHONYLCHOLINE' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.11 _cell.angle_gamma 90 _cell.entry_id 8ITR _cell.length_a 184.729 _cell.length_b 38.843 _cell.length_c 95.186 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ITR _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G 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 A SG CYS 51 A CYS 53 1_555 A SG CYS 60 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 A SG CYS 73 A CYS 75 1_555 A SG CYS 89 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 88 A CYS 90 1_555 A SG CYS 99 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 A SG CYS 122 A CYS 124 1_555 A SG CYS 167 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 166 A CYS 168 1_555 A SG CYS 175 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf6 A SG CYS 198 A CYS 200 1_555 A SG CYS 244 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf7 A SG CYS 243 A CYS 245 1_555 A SG CYS 251 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf8 A SG CYS 263 A CYS 265 1_555 A SG CYS 277 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf9 A SG CYS 276 A CYS 278 1_555 A SG CYS 287 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf10 A SG CYS 314 A CYS 316 1_555 A SG CYS 359 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf11 A SG CYS 358 A CYS 360 1_555 A SG CYS 367 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf12 A SG CYS 390 A CYS 392 1_555 A SG CYS 436 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf13 A SG CYS 435 A CYS 437 1_555 A SG CYS 446 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 A SG CYS 459 A CYS 461 1_555 A SG CYS 475 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf15 A SG CYS 474 A CYS 476 1_555 A SG CYS 485 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf16 A SG CYS 512 A CYS 514 1_555 A SG CYS 557 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf17 A SG CYS 556 A CYS 558 1_555 A SG CYS 565 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? # _chem_comp.formula 'C22 H47 N O7 P 1' _chem_comp.formula_weight 468.585 _chem_comp.id LPC _chem_comp.mon_nstd_flag . _chem_comp.name '[1-MYRISTOYL-GLYCEROL-3-YL]PHOSPHONYLCHOLINE' _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 C0A N1 LPC sing 194 n n C0A H0A1 LPC sing 195 n n C0A H0A2 LPC sing 196 n n C0A H0A3 LPC sing 197 n n C0B N1 LPC sing 198 n n C0B H0B1 LPC sing 199 n n C0B H0B2 LPC sing 200 n n C0B H0B3 LPC sing 201 n n C0C N1 LPC sing 202 n n C0C H0C1 LPC sing 203 n n C0C H0C2 LPC sing 204 n n C0C H0C3 LPC sing 205 n n N1 C2 LPC sing 206 n n C2 C3 LPC sing 207 n n C2 H21 LPC sing 208 n n C2 H22 LPC sing 209 n n C3 O4 LPC sing 210 n n C3 H31 LPC sing 211 n n C3 H32 LPC sing 212 n n O4 P5 LPC sing 213 n n P5 O5A LPC sing 214 n n P5 O5B LPC doub 215 n n P5 O6 LPC sing 216 n n O5A HO5A LPC sing 217 n n O6 C7 LPC sing 218 n n C7 C8 LPC sing 219 n n C7 H71 LPC sing 220 n n C7 H72 LPC sing 221 n n C8 O8 LPC sing 222 n n C8 C9 LPC sing 223 n n C8 H8 LPC sing 224 n n O8 HO8 LPC sing 225 n n C9 OQ2 LPC sing 226 n n C9 H91 LPC sing 227 n n C9 H92 LPC sing 228 n n OQ1 CA LPC doub 229 n n OQ2 CA LPC sing 230 n n CA CB LPC sing 231 n n CB CC LPC sing 232 n n CB HB1 LPC sing 233 n n CB HB2 LPC sing 234 n n CC CD LPC sing 235 n n CC HC1 LPC sing 236 n n CC HC2 LPC sing 237 n n CD CE LPC sing 238 n n CD HD1 LPC sing 239 n n CD HD2 LPC sing 240 n n CE CF LPC sing 241 n n CE HE1 LPC sing 242 n n CE HE2 LPC sing 243 n n CF CG LPC sing 244 n n CF HF1 LPC sing 245 n n CF HF2 LPC sing 246 n n CG CH LPC sing 247 n n CG HG1 LPC sing 248 n n CG HG2 LPC sing 249 n n CH CI LPC sing 250 n n CH HH1 LPC sing 251 n n CH HH2 LPC sing 252 n n CI CJ LPC sing 253 n n CI HI1 LPC sing 254 n n CI HI2 LPC sing 255 n n CJ CK LPC sing 256 n n CJ HJ1 LPC sing 257 n n CJ HJ2 LPC sing 258 n n CK CL LPC sing 259 n n CK HK1 LPC sing 260 n n CK HK2 LPC sing 261 n n CL CM LPC sing 262 n n CL HL1 LPC sing 263 n n CL HL2 LPC sing 264 n n CM CN LPC sing 265 n n CM HM1 LPC sing 266 n n CM HM2 LPC sing 267 n n CN HN1 LPC sing 268 n n CN HN2 LPC sing 269 n n CN HN3 LPC sing 270 n n # _atom_sites.entry_id 8ITR _atom_sites.fract_transf_matrix[1][1] 0.005413 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001462 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025745 _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] 0.010882 _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 B 2 LPC A 1 601 1007 LPC LPC . C 2 LPC A 1 602 1001 LPC LPC . D 2 LPC A 1 603 1002 LPC LPC . E 2 LPC A 1 604 1003 LPC LPC . F 2 LPC A 1 605 1005 LPC LPC . G 2 LPC A 1 606 1006 LPC LPC . H 3 HOH A 1 701 4015 HOH HOH . H 3 HOH A 2 702 4010 HOH HOH . H 3 HOH A 3 703 4007 HOH HOH . H 3 HOH A 4 704 4002 HOH HOH . H 3 HOH A 5 705 4001 HOH HOH . H 3 HOH A 6 706 4013 HOH HOH . H 3 HOH A 7 707 4008 HOH HOH . H 3 HOH A 8 708 4009 HOH HOH . H 3 HOH A 9 709 4006 HOH HOH . H 3 HOH A 10 710 4019 HOH HOH . H 3 HOH A 11 711 4011 HOH HOH . H 3 HOH A 12 712 4003 HOH HOH . H 3 HOH A 13 713 4004 HOH HOH . H 3 HOH A 14 714 4005 HOH HOH . H 3 HOH A 15 715 4022 HOH HOH . H 3 HOH A 16 716 4021 HOH HOH . H 3 HOH A 17 717 4016 HOH HOH . H 3 HOH A 18 718 4020 HOH HOH . H 3 HOH A 19 719 4012 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 C0A LPC . . . D 2 -43.32 5.462 -13.278 1 58.28 ? C0A LPC 603 A 1 HETATM 2 C C0B LPC . . . D 2 -41.625 5.29 -14.967 1 50.39 ? C0B LPC 603 A 1 HETATM 3 C C0C LPC . . . D 2 -41.483 7.004 -13.294 1 47.67 ? C0C LPC 603 A 1 HETATM 4 N N1 LPC . . . D 2 -42.399 6.221 -14.134 1 58.7 ? N1 LPC 603 A 1 HETATM 5 C C2 LPC . . . D 2 -43.167 7.128 -14.998 1 59.19 ? C2 LPC 603 A 1 HETATM 6 C C3 LPC . . . D 2 -43.659 6.367 -16.223 1 60.21 ? C3 LPC 603 A 1 HETATM 7 O O4 LPC . . . D 2 -44.62 5.392 -15.823 1 58.63 ? O4 LPC 603 A 1 HETATM 8 P P5 LPC . . . D 2 -46.01 5.239 -16.622 1 58.68 ? P5 LPC 603 A 1 HETATM 9 O O5A LPC . . . D 2 -47.087 4.87 -15.63 1 55.74 ? O5A LPC 603 A 1 HETATM 10 O O5B LPC . . . D 2 -46.183 6.452 -17.505 1 56.89 ? O5B LPC 603 A 1 HETATM 11 O O6 LPC . . . D 2 -45.735 3.964 -17.565 1 54.99 ? O6 LPC 603 A 1 HETATM 12 C C7 LPC . . . D 2 -46.726 2.95 -17.718 1 60.07 ? C7 LPC 603 A 1 HETATM 13 C C8 LPC . . . D 2 -46.919 2.648 -19.199 1 53.91 ? C8 LPC 603 A 1 HETATM 14 O O8 LPC . . . D 2 -47.067 3.876 -19.921 1 57.04 ? O8 LPC 603 A 1 HETATM 15 C C9 LPC . . . D 2 -48.169 1.796 -19.385 1 57.89 ? C9 LPC 603 A 1 HETATM 16 O OQ1 LPC . . . D 2 -51.391 2.296 -20.632 1 55.99 ? OQ1 LPC 603 A 1 HETATM 17 O OQ2 LPC . . . D 2 -49.229 2.61 -19.885 1 60.66 ? OQ2 LPC 603 A 1 HETATM 18 C CA LPC . . . D 2 -50.208 2.046 -20.8 1 62.38 ? CA LPC 603 A 1 HETATM 19 C CB LPC . . . D 2 -49.761 1.164 -21.941 1 61.67 ? CB LPC 603 A 1 HETATM 20 C CC LPC . . . D 2 -49.51 -0.247 -21.423 1 65.9 ? CC LPC 603 A 1 HETATM 21 C CD LPC . . . D 2 -50.738 -0.792 -20.704 1 70.03 ? CD LPC 603 A 1 HETATM 22 C CE LPC . . . D 2 -51.669 -1.506 -21.677 1 63.41 ? CE LPC 603 A 1 HETATM 23 C CF LPC . . . D 2 -53.108 -1.038 -21.5 1 59.39 ? CF LPC 603 A 1 HETATM 24 C CG LPC . . . D 2 -54.082 -1.999 -22.171 1 54.8 ? CG LPC 603 A 1 HETATM 25 C CH LPC . . . D 2 -55.525 -1.59 -21.903 1 51.79 ? CH LPC 603 A 1 HETATM 26 C CI LPC . . . D 2 -56.168 -1.003 -23.153 1 49.37 ? CI LPC 603 A 1 HETATM 27 C CJ LPC . . . D 2 -56.418 -2.084 -24.198 1 49.91 ? CJ LPC 603 A 1 HETATM 28 C CK LPC . . . D 2 -57.9 -2.43 -24.281 1 51.54 ? CK LPC 603 A 1 HETATM 29 C CL LPC . . . D 2 -58.318 -2.696 -25.723 1 47.35 ? CL LPC 603 A 1 HETATM 30 C CM LPC . . . D 2 -59.83 -2.588 -25.881 1 51.95 ? CM LPC 603 A 1 HETATM 31 C CN LPC . . . D 2 -60.207 -2.331 -27.324 1 48.4 ? CN LPC 603 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #