data_3EJH # _model_server_result.job_id RDy9kXgXS59iyXTkLnInHg _model_server_result.datetime_utc '2025-08-30 23:46:06' _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 3ejh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":609}' # _entry.id 3EJH # _exptl.entry_id 3EJH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 120 _cell.entry_id 3EJH _cell.length_a 56.84 _cell.length_b 56.84 _cell.length_c 150.22 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EJH _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,H,I 1 1 C,D,F,G,J,K 2 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 3 A CYS 518 1_555 A SG CYS 30 A CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 28 A CYS 543 1_555 A SG CYS 40 A CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf3 A SG CYS 46 A CYS 561 1_555 A SG CYS 74 A CYS 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 72 A CYS 587 1_555 A SG CYS 84 A CYS 599 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf5 C SG CYS 3 B CYS 518 1_555 C SG CYS 30 B CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 C SG CYS 28 B CYS 543 1_555 C SG CYS 40 B CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf7 C SG CYS 46 B CYS 561 1_555 C SG CYS 74 B CYS 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf8 C SG CYS 72 B CYS 587 1_555 C SG CYS 84 B CYS 599 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 E C1 NAG . A NAG 1 1_555 A ND2 ASN 27 A ASN 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 B C LEU 8 E LEU 963 1_555 B N HYP 9 E HYP 964 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? covale ? covale3 B C HYP 9 E HYP 964 1_555 B N GLY 10 E GLY 965 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 B C PHE 17 E PHE 972 1_555 B N HYP 18 E HYP 973 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale5 B C HYP 18 E HYP 973 1_555 B N GLY 19 E GLY 974 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 F C1 NAG . B NAG 1 1_555 C ND2 ASN 27 B ASN 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale7 D C LEU 8 F LEU 963 1_555 D N HYP 9 F HYP 964 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale8 D C HYP 9 F HYP 964 1_555 D N GLY 10 F GLY 965 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 D C PHE 17 F PHE 972 1_555 D N HYP 18 F HYP 973 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 D C HYP 18 F HYP 973 1_555 D N GLY 19 F GLY 974 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale11 D C LEU 20 F LEU 975 1_555 D N HYP 21 F HYP 976 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale12 D C HYP 21 F HYP 976 1_555 D N GLY 22 F GLY 977 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 117 n n C1 C2 GOL sing 118 n n C1 H11 GOL sing 119 n n C1 H12 GOL sing 120 n n O1 HO1 GOL sing 121 n n C2 O2 GOL sing 122 n n C2 C3 GOL sing 123 n n C2 H2 GOL sing 124 n n O2 HO2 GOL sing 125 n n C3 O3 GOL sing 126 n n C3 H31 GOL sing 127 n n C3 H32 GOL sing 128 n n O3 HO3 GOL sing 129 n n # _atom_sites.entry_id 3EJH _atom_sites.fract_transf_matrix[1][1] 0.017593 _atom_sites.fract_transf_matrix[1][2] 0.010157 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020315 _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] 0.006657 _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 E 3 NAG A 1 1 1 NAG NAG . F 3 NAG B 1 1 1 NAG NAG . G 4 GOL B 1 609 1 GOL GOL . H 5 HOH A 1 76 76 HOH HOH . H 5 HOH A 2 80 80 HOH HOH . H 5 HOH A 3 609 1 HOH HOH . H 5 HOH A 4 610 3 HOH HOH . H 5 HOH A 5 611 5 HOH HOH . H 5 HOH A 6 612 10 HOH HOH . H 5 HOH A 7 613 12 HOH HOH . H 5 HOH A 8 614 13 HOH HOH . H 5 HOH A 9 615 14 HOH HOH . H 5 HOH A 10 616 15 HOH HOH . H 5 HOH A 11 617 16 HOH HOH . H 5 HOH A 12 618 19 HOH HOH . H 5 HOH A 13 619 21 HOH HOH . H 5 HOH A 14 620 22 HOH HOH . H 5 HOH A 15 621 25 HOH HOH . H 5 HOH A 16 622 27 HOH HOH . H 5 HOH A 17 623 29 HOH HOH . H 5 HOH A 18 624 30 HOH HOH . H 5 HOH A 19 625 31 HOH HOH . H 5 HOH A 20 626 35 HOH HOH . H 5 HOH A 21 627 39 HOH HOH . H 5 HOH A 22 628 45 HOH HOH . H 5 HOH A 23 629 46 HOH HOH . H 5 HOH A 24 630 48 HOH HOH . H 5 HOH A 25 631 49 HOH HOH . H 5 HOH A 26 632 50 HOH HOH . H 5 HOH A 27 633 52 HOH HOH . H 5 HOH A 28 634 53 HOH HOH . H 5 HOH A 29 635 61 HOH HOH . H 5 HOH A 30 636 62 HOH HOH . H 5 HOH A 31 637 64 HOH HOH . H 5 HOH A 32 638 65 HOH HOH . H 5 HOH A 33 639 66 HOH HOH . H 5 HOH A 34 640 68 HOH HOH . H 5 HOH A 35 641 70 HOH HOH . H 5 HOH A 36 642 72 HOH HOH . H 5 HOH A 37 643 73 HOH HOH . H 5 HOH A 38 644 75 HOH HOH . H 5 HOH A 39 645 78 HOH HOH . H 5 HOH A 40 646 79 HOH HOH . H 5 HOH A 41 647 81 HOH HOH . H 5 HOH A 42 648 83 HOH HOH . H 5 HOH A 43 649 87 HOH HOH . H 5 HOH A 44 650 89 HOH HOH . H 5 HOH A 45 651 94 HOH HOH . H 5 HOH A 46 652 96 HOH HOH . H 5 HOH A 47 653 97 HOH HOH . H 5 HOH A 48 654 99 HOH HOH . H 5 HOH A 49 655 101 HOH HOH . H 5 HOH A 50 656 103 HOH HOH . I 5 HOH E 1 26 26 HOH HOH . I 5 HOH E 2 32 32 HOH HOH . I 5 HOH E 3 41 41 HOH HOH . I 5 HOH E 4 44 44 HOH HOH . I 5 HOH E 5 67 67 HOH HOH . I 5 HOH E 6 71 71 HOH HOH . I 5 HOH E 7 84 84 HOH HOH . I 5 HOH E 8 91 91 HOH HOH . I 5 HOH E 9 92 92 HOH HOH . I 5 HOH E 10 105 105 HOH HOH . J 5 HOH B 1 2 2 HOH HOH . J 5 HOH B 2 4 4 HOH HOH . J 5 HOH B 3 6 6 HOH HOH . J 5 HOH B 4 7 7 HOH HOH . J 5 HOH B 5 8 8 HOH HOH . J 5 HOH B 6 9 9 HOH HOH . J 5 HOH B 7 11 11 HOH HOH . J 5 HOH B 8 17 17 HOH HOH . J 5 HOH B 9 20 20 HOH HOH . J 5 HOH B 10 23 23 HOH HOH . J 5 HOH B 11 24 24 HOH HOH . J 5 HOH B 12 33 33 HOH HOH . J 5 HOH B 13 34 34 HOH HOH . J 5 HOH B 14 37 37 HOH HOH . J 5 HOH B 15 38 38 HOH HOH . J 5 HOH B 16 43 43 HOH HOH . J 5 HOH B 17 47 47 HOH HOH . J 5 HOH B 18 51 51 HOH HOH . J 5 HOH B 19 54 54 HOH HOH . J 5 HOH B 20 55 55 HOH HOH . J 5 HOH B 21 56 56 HOH HOH . J 5 HOH B 22 57 57 HOH HOH . J 5 HOH B 23 58 58 HOH HOH . J 5 HOH B 24 59 59 HOH HOH . J 5 HOH B 25 60 60 HOH HOH . J 5 HOH B 26 63 63 HOH HOH . J 5 HOH B 27 82 82 HOH HOH . J 5 HOH B 28 85 85 HOH HOH . J 5 HOH B 29 86 86 HOH HOH . J 5 HOH B 30 88 88 HOH HOH . J 5 HOH B 31 90 90 HOH HOH . J 5 HOH B 32 93 93 HOH HOH . J 5 HOH B 33 95 95 HOH HOH . J 5 HOH B 34 98 98 HOH HOH . J 5 HOH B 35 102 102 HOH HOH . K 5 HOH F 1 18 18 HOH HOH . K 5 HOH F 2 28 28 HOH HOH . K 5 HOH F 3 36 36 HOH HOH . K 5 HOH F 4 40 40 HOH HOH . K 5 HOH F 5 42 42 HOH HOH . K 5 HOH F 6 69 69 HOH HOH . K 5 HOH F 7 74 74 HOH HOH . K 5 HOH F 8 77 77 HOH HOH . K 5 HOH F 9 100 100 HOH HOH . K 5 HOH F 10 104 104 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 GOL . . . G 4 -16.539 54.36 -4.407 1 95.3 ? C1 GOL 609 B 1 HETATM 2 O O1 GOL . . . G 4 -15.831 53.884 -3.285 1 93.48 ? O1 GOL 609 B 1 HETATM 3 C C2 GOL . . . G 4 -17.863 54.994 -3.98 1 92.91 ? C2 GOL 609 B 1 HETATM 4 O O2 GOL . . . G 4 -18.16 54.676 -2.636 1 94.31 ? O2 GOL 609 B 1 HETATM 5 C C3 GOL . . . G 4 -18.978 54.49 -4.89 1 74.85 ? C3 GOL 609 B 1 HETATM 6 O O3 GOL . . . G 4 -18.567 54.671 -6.226 1 65.23 ? O3 GOL 609 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #