data_5KLV # _model_server_result.job_id 0z-CpNK42-_VmldY6mj6ig _model_server_result.datetime_utc '2024-11-05 06:52:42' _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 5klv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":501}' # _entry.id 5KLV # _exptl.entry_id 5KLV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 410.42 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIHEXANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE _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 90 _cell.entry_id 5KLV _cell.length_a 153.986 _cell.length_b 153.986 _cell.length_c 592.713 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KLV _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 153.986 153.986 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 12 L N N ? 12 BA 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 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 H SG CYS 24 H CYS 24 1_555 H SG CYS 68 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 H SG CYS 40 H CYS 40 1_555 H SG CYS 54 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 D SG CYS 37 D CYS 37 1_555 V CAB HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.796 ? covale ? covale2 D SG CYS 40 D CYS 40 1_555 V CAC HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 Q FE HEM . C HEM 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 R FE HEM . C HEM 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 Q FE HEM . C HEM 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 R FE HEM . C HEM 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 V FE HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 V FE HEC . D HEC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 Y FE1 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 Y FE2 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 Y FE1 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 Y FE2 FES . E FES 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? # _chem_comp.formula 'C17 H33 N O8 P -1' _chem_comp.formula_weight 410.42 _chem_comp.id 6PE _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIHEXANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE _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 O1 P1 6PE sing 1 n n O2 P1 6PE doub 2 n n P1 O3 6PE sing 3 n n P1 O8 6PE sing 4 n n O3 C1 6PE sing 5 n n C1 C2 6PE sing 6 n n C1 H1 6PE sing 7 n n C1 H2 6PE sing 8 n n C2 C3 6PE sing 9 n n C2 O6 6PE sing 10 n n C2 H3 6PE sing 11 n n C3 O4 6PE sing 12 n n C3 H4 6PE sing 13 n n C3 H5 6PE sing 14 n n O4 C4 6PE sing 15 n n C4 O5 6PE doub 16 n n C4 C5 6PE sing 17 n n C5 C6 6PE sing 18 n n C5 H6 6PE sing 19 n n C5 H7 6PE sing 20 n n C6 C7 6PE sing 21 n n C6 H8 6PE sing 22 n n C6 H9 6PE sing 23 n n C7 C8 6PE sing 24 n n C7 H10 6PE sing 25 n n C7 H11 6PE sing 26 n n C8 C9 6PE sing 27 n n C8 H12 6PE sing 28 n n C8 H13 6PE sing 29 n n C9 H14 6PE sing 30 n n C9 H15 6PE sing 31 n n C9 H16 6PE sing 32 n n O6 C10 6PE sing 33 n n C10 O7 6PE doub 34 n n C10 C11 6PE sing 35 n n C11 C12 6PE sing 36 n n C11 H17 6PE sing 37 n n C11 H18 6PE sing 38 n n C12 C13 6PE sing 39 n n C12 H19 6PE sing 40 n n C12 H20 6PE sing 41 n n C13 C14 6PE sing 42 n n C13 H21 6PE sing 43 n n C13 H22 6PE sing 44 n n C14 C15 6PE sing 45 n n C14 H23 6PE sing 46 n n C14 H24 6PE sing 47 n n C15 H25 6PE sing 48 n n C15 H26 6PE sing 49 n n C15 H27 6PE sing 50 n n O8 C16 6PE sing 51 n n C16 C17 6PE sing 52 n n C16 H28 6PE sing 53 n n C16 H29 6PE sing 54 n n C17 N1 6PE sing 55 n n C17 H30 6PE sing 56 n n C17 H31 6PE sing 57 n n N1 H32 6PE sing 58 n n N1 H33 6PE sing 59 n n # _atom_sites.entry_id 5KLV _atom_sites.fract_transf_matrix[1][1] 0.006494 _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] 0.006494 _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] 0.001687 _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 L 12 6PE A 1 501 2 6PE 6PE . M 13 CDL A 1 502 8 CDL CDL . N 14 GOL B 1 501 1 GOL GOL . O 14 GOL B 1 502 2 GOL GOL . P 14 GOL B 1 503 3 GOL GOL . Q 15 HEM C 1 1001 1001 HEM HEM . R 15 HEM C 1 1002 1002 HEM HEM . S 16 FNM C 1 1003 1101 FNM FNM . T 17 8PE C 1 1004 3 8PE 8PE . U 18 CL C 1 1005 4 CL CL . V 19 HEC D 1 1001 1001 HEC HEC . W 20 PEF D 1 1002 4 PEF PEF . X 13 CDL D 1 1003 7 CDL CDL . Y 21 FES E 1 1001 1001 FES FES . Z 13 CDL G 1 101 6 CDL CDL . AA 22 PX4 J 1 101 5 PX4 PX4 . BA 12 6PE K 1 101 1 6PE 6PE . CA 23 HOH A 1 601 6 HOH HOH . CA 23 HOH A 2 602 5 HOH HOH . CA 23 HOH A 3 603 48 HOH HOH . CA 23 HOH A 4 604 3 HOH HOH . CA 23 HOH A 5 605 2 HOH HOH . CA 23 HOH A 6 606 4 HOH HOH . CA 23 HOH A 7 607 1 HOH HOH . CA 23 HOH A 8 608 7 HOH HOH . DA 23 HOH B 1 601 33 HOH HOH . DA 23 HOH B 2 602 21 HOH HOH . DA 23 HOH B 3 603 10 HOH HOH . DA 23 HOH B 4 604 29 HOH HOH . DA 23 HOH B 5 605 13 HOH HOH . DA 23 HOH B 6 606 8 HOH HOH . DA 23 HOH B 7 607 9 HOH HOH . DA 23 HOH B 8 608 20 HOH HOH . DA 23 HOH B 9 609 17 HOH HOH . DA 23 HOH B 10 610 19 HOH HOH . DA 23 HOH B 11 611 18 HOH HOH . DA 23 HOH B 12 612 11 HOH HOH . DA 23 HOH B 13 613 31 HOH HOH . DA 23 HOH B 14 614 35 HOH HOH . DA 23 HOH B 15 615 22 HOH HOH . DA 23 HOH B 16 616 24 HOH HOH . DA 23 HOH B 17 617 15 HOH HOH . DA 23 HOH B 18 618 25 HOH HOH . DA 23 HOH B 19 619 27 HOH HOH . DA 23 HOH B 20 620 12 HOH HOH . DA 23 HOH B 21 621 16 HOH HOH . DA 23 HOH B 22 622 26 HOH HOH . DA 23 HOH B 23 623 23 HOH HOH . DA 23 HOH B 24 624 30 HOH HOH . DA 23 HOH B 25 625 28 HOH HOH . DA 23 HOH B 26 626 14 HOH HOH . DA 23 HOH B 27 627 32 HOH HOH . DA 23 HOH B 28 628 34 HOH HOH . EA 23 HOH C 1 1101 38 HOH HOH . EA 23 HOH C 2 1102 36 HOH HOH . EA 23 HOH C 3 1103 1102 HOH HOH . EA 23 HOH C 4 1104 37 HOH HOH . FA 23 HOH D 1 1101 40 HOH HOH . FA 23 HOH D 2 1102 39 HOH HOH . FA 23 HOH D 3 1103 42 HOH HOH . FA 23 HOH D 4 1104 41 HOH HOH . GA 23 HOH F 1 201 47 HOH HOH . GA 23 HOH F 2 202 46 HOH HOH . GA 23 HOH F 3 203 44 HOH HOH . GA 23 HOH F 4 204 43 HOH HOH . GA 23 HOH F 5 205 45 HOH HOH . HA 23 HOH I 1 101 49 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 O O1 6PE . . . L 12 53.662 83.58 136.073 1 82.23 ? O1 6PE 501 A 1 HETATM 2 O O2 6PE . . . L 12 51.5 84.884 135.476 1 81.63 ? O2 6PE 501 A 1 HETATM 3 P P1 6PE . . . L 12 52.906 84.861 135.966 1 82.78 ? P1 6PE 501 A 1 HETATM 4 O O3 6PE . . . L 12 52.935 85.488 137.379 1 85.47 ? O3 6PE 501 A 1 HETATM 5 C C1 6PE . . . L 12 52.57 84.704 138.474 1 87.89 ? C1 6PE 501 A 1 HETATM 6 C C2 6PE . . . L 12 53.79 84.028 139.248 1 90.25 ? C2 6PE 501 A 1 HETATM 7 C C3 6PE . . . L 12 55.122 84.934 139.167 1 91.69 ? C3 6PE 501 A 1 HETATM 8 O O4 6PE . . . L 12 55.779 85.175 140.429 1 93.66 ? O4 6PE 501 A 1 HETATM 9 C C4 6PE . . . L 12 55.241 86.154 141.276 1 95.51 ? C4 6PE 501 A 1 HETATM 10 O O5 6PE . . . L 12 54.209 86.685 140.989 1 95.92 ? O5 6PE 501 A 1 HETATM 11 C C5 6PE . . . L 12 55.895 86.364 142.712 1 96.27 ? C5 6PE 501 A 1 HETATM 12 C C6 6PE . . . L 12 55.456 87.659 143.52 1 96.63 ? C6 6PE 501 A 1 HETATM 13 C C7 6PE . . . L 12 56.061 87.881 144.959 1 96.97 ? C7 6PE 501 A 1 HETATM 14 C C8 6PE . . . L 12 55.297 88.866 145.894 1 97.17 ? C8 6PE 501 A 1 HETATM 15 C C9 6PE . . . L 12 55.95 89.166 147.246 1 96.67 ? C9 6PE 501 A 1 HETATM 16 O O6 6PE . . . L 12 53.492 83.684 140.626 1 91.58 ? O6 6PE 501 A 1 HETATM 17 C C10 6PE . . . L 12 53.846 82.408 141.106 1 93.16 ? C10 6PE 501 A 1 HETATM 18 O O7 6PE . . . L 12 53.251 81.453 140.712 1 93.61 ? O7 6PE 501 A 1 HETATM 19 C C11 6PE . . . L 12 55.279 82.231 141.757 1 94.44 ? C11 6PE 501 A 1 HETATM 20 C C12 6PE . . . L 12 55.323 81.506 143.156 1 95.65 ? C12 6PE 501 A 1 HETATM 21 C C13 6PE . . . L 12 56.445 81.963 144.15 1 96.41 ? C13 6PE 501 A 1 HETATM 22 C C14 6PE . . . L 12 56.683 81.078 145.397 1 96.62 ? C14 6PE 501 A 1 HETATM 23 C C15 6PE . . . L 12 57.959 81.379 146.193 1 96.44 ? C15 6PE 501 A 1 HETATM 24 O O8 6PE . . . L 12 53.784 85.821 135.122 1 82.58 ? O8 6PE 501 A 1 HETATM 25 C C16 6PE . . . L 12 53.274 87.089 134.796 1 81.87 ? C16 6PE 501 A 1 HETATM 26 C C17 6PE . . . L 12 53.939 87.671 133.526 1 80.72 ? C17 6PE 501 A 1 HETATM 27 N N1 6PE . . . L 12 53.453 89.021 133.201 1 80.4 ? N1 6PE 501 A 1 HETATM 28 H H1 6PE . . . L 12 51.869 83.908 138.199 1 105.69 ? H1 6PE 501 A 1 HETATM 29 H H2 6PE . . . L 12 51.967 85.316 139.189 1 105.69 ? H2 6PE 501 A 1 HETATM 30 H H3 6PE . . . L 12 53.981 83.106 138.658 1 108.52 ? H3 6PE 501 A 1 HETATM 31 H H4 6PE . . . L 12 54.853 85.885 138.676 1 110.25 ? H4 6PE 501 A 1 HETATM 32 H H5 6PE . . . L 12 55.821 84.486 138.426 1 110.25 ? H5 6PE 501 A 1 HETATM 33 H H6 6PE . . . L 12 56.983 86.364 142.653 1 115.75 ? H6 6PE 501 A 1 HETATM 34 H H7 6PE . . . L 12 55.687 85.495 143.356 1 115.75 ? H7 6PE 501 A 1 HETATM 35 H H8 6PE . . . L 12 54.362 87.669 143.601 1 116.17 ? H8 6PE 501 A 1 HETATM 36 H H9 6PE . . . L 12 55.683 88.54 142.908 1 116.17 ? H9 6PE 501 A 1 HETATM 37 H H10 6PE . . . L 12 57.101 88.236 144.89 1 116.58 ? H10 6PE 501 A 1 HETATM 38 H H11 6PE . . . L 12 56.151 86.924 145.494 1 116.58 ? H11 6PE 501 A 1 HETATM 39 H H12 6PE . . . L 12 54.28 88.505 146.114 1 116.83 ? H12 6PE 501 A 1 HETATM 40 H H13 6PE . . . L 12 55.124 89.828 145.394 1 116.83 ? H13 6PE 501 A 1 HETATM 41 H H14 6PE . . . L 12 55.461 89.981 147.802 1 116.23 ? H14 6PE 501 A 1 HETATM 42 H H15 6PE . . . L 12 56.989 89.48 147.151 1 116.23 ? H15 6PE 501 A 1 HETATM 43 H H16 6PE . . . L 12 55.934 88.318 147.934 1 116.23 ? H16 6PE 501 A 1 HETATM 44 H H17 6PE . . . L 12 55.768 83.203 141.899 1 113.54 ? H17 6PE 501 A 1 HETATM 45 H H18 6PE . . . L 12 55.974 81.697 141.102 1 113.54 ? H18 6PE 501 A 1 HETATM 46 H H19 6PE . . . L 12 55.425 80.426 142.994 1 115 ? H19 6PE 501 A 1 HETATM 47 H H20 6PE . . . L 12 54.35 81.637 143.644 1 115 ? H20 6PE 501 A 1 HETATM 48 H H21 6PE . . . L 12 56.238 82.989 144.489 1 115.92 ? H21 6PE 501 A 1 HETATM 49 H H22 6PE . . . L 12 57.399 82.048 143.614 1 115.92 ? H22 6PE 501 A 1 HETATM 50 H H23 6PE . . . L 12 56.693 80.012 145.119 1 116.16 ? H23 6PE 501 A 1 HETATM 51 H H24 6PE . . . L 12 55.832 81.16 146.09 1 116.16 ? H24 6PE 501 A 1 HETATM 52 H H25 6PE . . . L 12 57.988 80.889 147.168 1 115.95 ? H25 6PE 501 A 1 HETATM 53 H H26 6PE . . . L 12 58.116 82.442 146.389 1 115.95 ? H26 6PE 501 A 1 HETATM 54 H H27 6PE . . . L 12 58.889 81.046 145.704 1 115.95 ? H27 6PE 501 A 1 HETATM 55 H H28 6PE . . . L 12 53.413 87.795 135.639 1 98.47 ? H28 6PE 501 A 1 HETATM 56 H H29 6PE . . . L 12 52.178 87.062 134.665 1 98.47 ? H29 6PE 501 A 1 HETATM 57 H H30 6PE . . . L 12 53.771 86.99 132.675 1 97.09 ? H30 6PE 501 A 1 HETATM 58 H H31 6PE . . . L 12 55.036 87.688 133.652 1 97.09 ? H31 6PE 501 A 1 HETATM 59 H H32 6PE . . . L 12 52.803 89.343 133.911 1 96.7 ? H32 6PE 501 A 1 HETATM 60 H H33 6PE . . . L 12 54.219 89.686 133.217 1 96.7 ? H33 6PE 501 A 1 # _model_server_stats.io_time_ms 243 _model_server_stats.parse_time_ms 75 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 60 #