data_5NMI # _model_server_result.job_id j5kcG05O8h8ObubOio4lng _model_server_result.datetime_utc '2024-11-23 12:36:48' _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 5nmi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"DA","auth_seq_id":502}' # _entry.id 5NMI # _exptl.entry_id 5NMI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 749.073 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine _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 90 _cell.angle_gamma 120 _cell.entry_id 5NMI _cell.length_a 129.477 _cell.length_b 129.477 _cell.length_c 720.294 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NMI _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _pdbx_struct_assembly.details 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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA _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 ? 13 Z N N ? 13 DA N N ? 13 GA N N ? 13 LA N N ? 13 PA N N ? 13 QA 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 E SG CYS 222 E CYS 144 1_555 E SG CYS 238 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 H SG CYS 37 H CYS 24 1_555 H SG CYS 81 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 H SG CYS 53 H CYS 40 1_555 H SG CYS 67 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 S SG CYS 37 U CYS 24 1_555 S SG CYS 81 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 S SG CYS 53 U CYS 40 1_555 S SG CYS 67 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 C NE2 HIS 76 C HIS 83 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc2 C NE2 HIS 90 C HIS 97 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? metalc ? metalc3 C NE2 HIS 175 C HIS 182 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? metalc ? metalc4 C NE2 HIS 189 C HIS 196 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? covale ? covale1 D SG CYS 36 D CYS 37 1_555 CA CAB HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? covale ? covale2 D SG CYS 39 D CYS 40 1_555 CA CAC HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.665 ? metalc ? metalc5 D NE2 HIS 40 D HIS 41 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? metalc ? metalc6 D SD MET 159 D MET 160 1_555 CA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc7 E SG CYS 217 E CYS 139 1_555 FA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc8 E ND1 HIS 219 E HIS 141 1_555 FA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? metalc ? metalc9 E SG CYS 236 E CYS 158 1_555 FA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc10 E ND1 HIS 239 E HIS 161 1_555 FA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.877 ? metalc ? metalc11 N NE2 HIS 76 P HIS 83 1_555 IA FE HEM . P HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.81 ? metalc ? metalc12 N NE2 HIS 90 P HIS 97 1_555 JA FE HEM . P HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc13 N NE2 HIS 175 P HIS 182 1_555 IA FE HEM . P HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.764 ? metalc ? metalc14 N NE2 HIS 189 P HIS 196 1_555 JA FE HEM . P HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.894 ? covale ? covale3 O SG CYS 36 Q CYS 37 1_555 OA CAB HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.626 ? covale ? covale4 O SG CYS 39 Q CYS 40 1_555 OA CAC HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.678 ? metalc ? metalc15 O NE2 HIS 40 Q HIS 41 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc16 O SD MET 159 Q MET 160 1_555 OA FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? # _chem_comp.formula 'C41 H83 N O8 P 1' _chem_comp.formula_weight 749.073 _chem_comp.id PEE _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DOPE # _atom_sites.entry_id 5NMI _atom_sites.fract_transf_matrix[1][1] 0.007723 _atom_sites.fract_transf_matrix[1][2] 0.004459 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008918 _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] 0.001388 _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 W 11 HEM C 1 501 501 HEM HEM . X 11 HEM C 1 502 502 HEM HEM . Y 12 MJM C 1 503 503 MJM MJM . Z 13 PEE C 1 504 504 PEE PEE . AA 14 CDL C 1 505 505 CDL CDL . BA 14 CDL C 1 506 501 CDL CDL . CA 15 HEC D 1 501 501 HEC HEC . DA 13 PEE D 1 502 502 PEE PEE . EA 14 CDL D 1 503 503 CDL CDL . FA 16 FES E 1 501 501 FES FES . GA 13 PEE E 1 502 502 PEE PEE . HA 14 CDL P 1 401 503 CDL CDL . IA 11 HEM P 1 402 501 HEM HEM . JA 11 HEM P 1 403 502 HEM HEM . KA 12 MJM P 1 404 503 MJM MJM . LA 13 PEE P 1 405 504 PEE PEE . MA 14 CDL P 1 406 505 CDL CDL . NA 14 CDL P 1 407 501 CDL CDL . OA 15 HEC Q 1 501 501 HEC HEC . PA 13 PEE R 1 201 502 PEE PEE . QA 13 PEE R 1 202 502 PEE PEE . # 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 C2 PEE . . . DA 13 44.372 -5.476 -15.911 1 68.73 ? C2 PEE 502 D 1 HETATM 2 C C1 PEE . . . DA 13 45.224 -6.401 -17.465 1 71.41 ? C1 PEE 502 D 1 HETATM 3 N N PEE . . . DA 13 49.384 -6.229 -20.873 1 78.24 ? N PEE 502 D 1 HETATM 4 C C3 PEE . . . DA 13 45.644 -5.082 -15.376 1 64.01 ? C3 PEE 502 D 1 HETATM 5 C C4 PEE . . . DA 13 47.034 -6.914 -20.96 1 68.9 ? C4 PEE 502 D 1 HETATM 6 C C5 PEE . . . DA 13 48.037 -5.988 -20.303 1 72.36 ? C5 PEE 502 D 1 HETATM 7 C C10 PEE . . . DA 13 42.632 -4.43 -15.926 1 74.51 ? C10 PEE 502 D 1 HETATM 8 C C11 PEE . . . DA 13 42.272 -3.831 -14.592 1 78.23 ? C11 PEE 502 D 1 HETATM 9 C C12 PEE . . . DA 13 41.383 -2.609 -14.748 1 85.86 ? C12 PEE 502 D 1 HETATM 10 C C13 PEE . . . DA 13 41.935 -1.373 -14.052 1 92.39 ? C13 PEE 502 D 1 HETATM 11 C C14 PEE . . . DA 13 41.351 -1.277 -12.647 1 95.25 ? C14 PEE 502 D 1 HETATM 12 C C15 PEE . . . DA 13 42.016 -0.207 -11.782 1 104.56 ? C15 PEE 502 D 1 HETATM 13 C C16 PEE . . . DA 13 41.045 0.888 -11.334 1 111.34 ? C16 PEE 502 D 1 HETATM 14 C C17 PEE . . . DA 13 40.566 1.78 -12.477 1 105.62 ? C17 PEE 502 D 1 HETATM 15 C C18 PEE . . . DA 13 40.544 3.259 -12.094 1 97.66 ? C18 PEE 502 D 1 HETATM 16 C C19 PEE . . . DA 13 39.547 3.527 -10.972 1 89.42 ? C19 PEE 502 D 1 HETATM 17 C C30 PEE . . . DA 13 45.52 -4.177 -13.063 1 67.87 ? C30 PEE 502 D 1 HETATM 18 C C31 PEE . . . DA 13 44.689 -3.669 -11.913 1 73.48 ? C31 PEE 502 D 1 HETATM 19 C C32 PEE . . . DA 13 45.525 -3.494 -10.653 1 79.41 ? C32 PEE 502 D 1 HETATM 20 C C33 PEE . . . DA 13 44.794 -2.636 -9.638 1 92.79 ? C33 PEE 502 D 1 HETATM 21 C C34 PEE . . . DA 13 45.737 -1.829 -8.743 1 101.35 ? C34 PEE 502 D 1 HETATM 22 C C35 PEE . . . DA 13 45.179 -0.449 -8.389 1 102.88 ? C35 PEE 502 D 1 HETATM 23 C C36 PEE . . . DA 13 45.681 0.642 -9.331 1 92.68 ? C36 PEE 502 D 1 HETATM 24 C C37 PEE . . . DA 13 45.171 2.024 -8.948 1 85.97 ? C37 PEE 502 D 1 HETATM 25 C C38 PEE . . . DA 13 45.705 3.08 -9.911 1 89.26 ? C38 PEE 502 D 1 HETATM 26 C C39 PEE . . . DA 13 44.597 3.867 -10.606 1 92.25 ? C39 PEE 502 D 1 HETATM 27 C C40 PEE . . . DA 13 45.14 4.512 -11.869 1 79.77 ? C40 PEE 502 D 1 HETATM 28 C C41 PEE . . . DA 13 44.152 5.508 -12.461 1 73.22 ? C41 PEE 502 D 1 HETATM 29 C C42 PEE . . . DA 13 44.888 6.522 -13.327 1 70.31 ? C42 PEE 502 D 1 HETATM 30 C C43 PEE . . . DA 13 43.93 7.54 -13.936 1 74.2 ? C43 PEE 502 D 1 HETATM 31 C C44 PEE . . . DA 13 43.096 6.96 -15.078 1 84.84 ? C44 PEE 502 D 1 HETATM 32 C C45 PEE . . . DA 13 42.981 7.938 -16.24 1 81.8 ? C45 PEE 502 D 1 HETATM 33 C C46 PEE . . . DA 13 42.165 7.335 -17.376 1 69.05 ? C46 PEE 502 D 1 HETATM 34 O O4 PEE . . . DA 13 42.297 -3.928 -16.967 1 81.83 ? O4 PEE 502 D 1 HETATM 35 O O5 PEE . . . DA 13 46.735 -4.089 -13.036 1 74.79 ? O5 PEE 502 D 1 HETATM 36 O O2 PEE . . . DA 13 43.419 -5.633 -16.043 1 70.59 ? O2 PEE 502 D 1 HETATM 37 O O3 PEE . . . DA 13 44.882 -4.768 -14.219 1 60.67 ? O3 PEE 502 D 1 HETATM 38 O O1P PEE . . . DA 13 45.745 -8.684 -19.072 1 84.19 ? O1P PEE 502 D 1 HETATM 39 O O2P PEE . . . DA 13 43.761 -8.03 -20.624 1 72.61 ? O2P PEE 502 D 1 HETATM 40 O O3P PEE . . . DA 13 44.323 -6.664 -18.533 1 73.99 ? O3P PEE 502 D 1 HETATM 41 O O4P PEE . . . DA 13 45.754 -6.568 -20.483 1 68.3 ? O4P PEE 502 D 1 HETATM 42 P P PEE . . . DA 13 44.862 -7.629 -19.691 1 79.87 ? P PEE 502 D 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 82 _model_server_stats.query_time_ms 465 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 42 #