data_7Y5Z # _model_server_result.job_id 6EuB-S4VQkoORqcL6bqHUQ _model_server_result.datetime_utc '2024-10-19 03:37:32' _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 7y5z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":501}' # _entry.id 7Y5Z # _exptl.entry_id 7Y5Z _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 790.145 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE _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 7Y5Z _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7Y5Z _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 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,I,J,K,L,M,N,O,P,Q,R,S,T _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 # _struct_asym.details ? _struct_asym.entity_id 8 _struct_asym.id Q _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 4 3 BMA BMA C1 O1 . O3 HO3 . sing 5 ? 6 5 3 BMA BMA C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 5 n E NAG 1 E 1 NAG A 1699 NAG 5 n E NAG 2 E 2 NAG A 1700 NAG 6 n F NAG 1 F 1 NAG A 1701 NAG 6 n F NAG 2 F 2 NAG A 1702 NAG 6 n F BMA 3 F 3 BMA A 1716 BMA 6 n F BMA 4 F 4 BMA A 1718 BMA 6 n F BMA 5 F 5 BMA A 1717 BMA 5 n G NAG 1 G 1 NAG A 1703 NAG 5 n G NAG 2 G 2 NAG A 1704 NAG 5 n H NAG 1 H 1 NAG A 1706 NAG 5 n H NAG 2 H 2 NAG A 1707 NAG 5 n I NAG 1 I 1 NAG A 1708 NAG 5 n I NAG 2 I 2 NAG A 1709 NAG 5 n J NAG 1 J 1 NAG A 1710 NAG 5 n J NAG 2 J 2 NAG A 1711 NAG # 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 50 A CYS 50 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 140 A CYS 140 1_555 A SG CYS 159 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 230 A CYS 230 1_555 A SG CYS 248 A CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf4 A SG CYS 586 A CYS 586 1_555 A SG CYS 620 A CYS 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A ND2 ASN 45 A ASN 45 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale2 A ND2 ASN 55 A ASN 55 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale3 A ND2 ASN 187 A ASN 187 1_555 O C1 NAG . A NAG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 A ND2 ASN 264 A ASN 264 1_555 N C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale5 A ND2 ASN 387 A ASN 387 1_555 K C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale6 A ND2 ASN 435 A ASN 435 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale7 A ND2 ASN 464 A ASN 464 1_555 L C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.602 ? covale ? covale8 A ND2 ASN 506 A ASN 506 1_555 M C1 NAG . A NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale9 A ND2 ASN 530 A ASN 530 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale10 A ND2 ASN 562 A ASN 562 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale11 A ND2 ASN 573 A ASN 573 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale12 A ND2 ASN 580 A ASN 580 1_555 P C1 NAG . A NAG 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale13 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale14 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale15 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale16 F O3 BMA . F BMA 3 1_555 F C1 BMA . F BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale17 F O6 BMA . F BMA 3 1_555 F C1 BMA . F BMA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale19 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale20 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale21 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _chem_comp.formula 'C44 H88 N O8 P' _chem_comp.formula_weight 790.145 _chem_comp.id PC1 _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 3-SN-PHOSPHATIDYLCHOLINE # _atom_sites.entry_id 7Y5Z _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 K 7 NAG A 1 801 1705 NAG NAG . L 7 NAG A 1 802 1712 NAG NAG . M 7 NAG A 1 803 1713 NAG NAG . N 7 NAG A 1 804 1714 NAG NAG . O 7 NAG A 1 805 1715 NAG NAG . P 7 NAG A 1 806 1719 NAG NAG . Q 8 PC1 B 1 501 482 PC1 PC1 . R 9 CLR C 1 301 301 CLR CLR . S 9 CLR C 1 302 401 CLR CLR . T 9 CLR C 1 303 501 CLR CLR . # 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 O12 PC1 . . . Q 8 114.945 102.111 110.184 1 118.69 ? O12 PC1 501 B 1 HETATM 2 P P PC1 . . . Q 8 115.655 103.143 111.016 1 118.69 ? P PC1 501 B 1 HETATM 3 O O14 PC1 . . . Q 8 116.629 102.732 112.085 1 118.69 ? O14 PC1 501 B 1 HETATM 4 O O13 PC1 . . . Q 8 114.524 104.088 111.653 1 118.69 ? O13 PC1 501 B 1 HETATM 5 C C11 PC1 . . . Q 8 113.326 103.481 112.218 1 118.69 ? C11 PC1 501 B 1 HETATM 6 C C12 PC1 . . . Q 8 113.629 102.506 113.331 1 118.69 ? C12 PC1 501 B 1 HETATM 7 N N PC1 . . . Q 8 113.802 103.078 114.725 1 118.69 ? N PC1 501 B 1 HETATM 8 C C13 PC1 . . . Q 8 115.073 103.846 114.834 1 118.69 ? C13 PC1 501 B 1 HETATM 9 C C14 PC1 . . . Q 8 112.666 103.984 115.043 1 118.69 ? C14 PC1 501 B 1 HETATM 10 C C15 PC1 . . . Q 8 113.824 101.969 115.714 1 118.69 ? C15 PC1 501 B 1 HETATM 11 O O11 PC1 . . . Q 8 116.425 104.132 110.016 1 118.69 ? O11 PC1 501 B 1 HETATM 12 C C1 PC1 . . . Q 8 117.514 104.947 110.525 1 118.69 ? C1 PC1 501 B 1 HETATM 13 C C2 PC1 . . . Q 8 118.07 105.785 109.397 1 118.69 ? C2 PC1 501 B 1 HETATM 14 O O21 PC1 . . . Q 8 117.142 106.853 109.081 1 118.69 ? O21 PC1 501 B 1 HETATM 15 C C21 PC1 . . . Q 8 117.354 108.055 109.636 1 118.69 ? C21 PC1 501 B 1 HETATM 16 O O22 PC1 . . . Q 8 118.071 108.217 110.588 1 118.69 ? O22 PC1 501 B 1 HETATM 17 C C22 PC1 . . . Q 8 116.633 109.151 108.905 1 118.69 ? C22 PC1 501 B 1 HETATM 18 C C23 PC1 . . . Q 8 117.48 109.863 107.893 1 118.69 ? C23 PC1 501 B 1 HETATM 19 C C24 PC1 . . . Q 8 117.926 108.954 106.76 1 118.69 ? C24 PC1 501 B 1 HETATM 20 C C25 PC1 . . . Q 8 116.791 108.25 106.058 1 118.69 ? C25 PC1 501 B 1 HETATM 21 C C26 PC1 . . . Q 8 117.222 107.263 105.002 1 118.69 ? C26 PC1 501 B 1 HETATM 22 C C27 PC1 . . . Q 8 118.132 107.841 103.948 1 118.69 ? C27 PC1 501 B 1 HETATM 23 C C28 PC1 . . . Q 8 118.351 106.94 102.761 1 118.69 ? C28 PC1 501 B 1 HETATM 24 C C29 PC1 . . . Q 8 117.102 106.669 101.957 1 118.69 ? C29 PC1 501 B 1 HETATM 25 C C2A PC1 . . . Q 8 117.307 105.747 100.781 1 118.69 ? C2A PC1 501 B 1 HETATM 26 C C2B PC1 . . . Q 8 118.361 106.209 99.808 1 118.69 ? C2B PC1 501 B 1 HETATM 27 C C3 PC1 . . . Q 8 118.313 105.014 108.12 1 118.69 ? C3 PC1 501 B 1 HETATM 28 O O31 PC1 . . . Q 8 119.374 104.056 108.344 1 118.69 ? O31 PC1 501 B 1 HETATM 29 C C31 PC1 . . . Q 8 119.757 103.25 107.346 1 118.69 ? C31 PC1 501 B 1 HETATM 30 O O32 PC1 . . . Q 8 120.351 102.224 107.536 1 118.69 ? O32 PC1 501 B 1 HETATM 31 C C32 PC1 . . . Q 8 119.44 103.758 105.959 1 118.69 ? C32 PC1 501 B 1 HETATM 32 C C33 PC1 . . . Q 8 119.953 102.855 104.886 1 118.69 ? C33 PC1 501 B 1 HETATM 33 C C34 PC1 . . . Q 8 119.448 103.228 103.504 1 118.69 ? C34 PC1 501 B 1 HETATM 34 C C35 PC1 . . . Q 8 119.917 102.294 102.416 1 118.69 ? C35 PC1 501 B 1 HETATM 35 C C36 PC1 . . . Q 8 119.394 102.614 101.038 1 118.69 ? C36 PC1 501 B 1 HETATM 36 C C37 PC1 . . . Q 8 119.924 101.7 99.958 1 118.69 ? C37 PC1 501 B 1 HETATM 37 C C38 PC1 . . . Q 8 119.447 102.032 98.566 1 118.69 ? C38 PC1 501 B 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 37 #