data_2DPK # _model_server_result.job_id N4eDSoRXM0Wgzy6WlMC5Pw _model_server_result.datetime_utc '2024-11-05 00:25:15' _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 2dpk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1008}' # _entry.id 2DPK # _exptl.entry_id 2DPK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 59.07 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GUANIDINE _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 2DPK _cell.length_a 59.624 _cell.length_b 45.524 _cell.length_c 57.269 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2DPK _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id F _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 26 A CYS 383 1_555 A SG CYS 30 A CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc1 H O HOH . A HOH 1 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc2 H O HOH . A HOH 15 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc3 H O HOH . A HOH 16 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc4 A OE1 GLU 28 A GLU 385 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc5 A OE2 GLU 28 A GLU 385 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc6 A OD1 ASP 64 A ASP 421 1_555 B CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc7 A OD2 ASP 64 A ASP 421 1_555 B CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc8 A OD2 ASP 64 A ASP 421 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc9 A OD2 ASP 89 A ASP 446 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc10 A OD2 ASP 90 A ASP 447 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc11 A O ASP 90 A ASP 447 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc12 A O ILE 92 A ILE 449 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc13 A OE2 GLU 94 A GLU 451 1_555 B CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc14 A OE1 GLU 94 A GLU 451 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? metalc ? metalc15 A OE2 GLU 94 A GLU 451 1_555 C CA CA . A CA 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? metalc ? metalc16 A OE1 GLU 94 A GLU 451 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc17 A OE1 GLU 97 A GLU 454 1_555 B CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.854 ? metalc ? metalc18 A OE2 GLU 97 A GLU 454 1_555 B CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.6 ? metalc ? metalc19 A OD1 ASP 141 A ASP 498 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc20 A OD1 ASP 142 A ASP 499 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc21 A OD2 ASP 143 A ASP 500 1_555 D CA CA . A CA 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc22 A OD1 ASP 143 A ASP 500 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc23 A OD2 ASP 143 A ASP 500 1_555 E CA CA . A CA 4001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.798 ? # _chem_comp.formula 'C H5 N3' _chem_comp.formula_weight 59.07 _chem_comp.id GAI _chem_comp.mon_nstd_flag . _chem_comp.name GUANIDINE _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 C N1 GAI doub 116 n n C N2 GAI sing 117 n n C N3 GAI sing 118 n n N1 HN1 GAI sing 119 n n N2 HN21 GAI sing 120 n n N2 HN22 GAI sing 121 n n N3 HN31 GAI sing 122 n n N3 HN32 GAI sing 123 n n # _atom_sites.entry_id 2DPK _atom_sites.fract_transf_matrix[1][1] 0.016772 _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] 0.021966 _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] 0.017461 _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 CA A 1 1001 1001 CA CA . C 2 CA A 1 2001 2001 CA CA . D 2 CA A 1 3001 3001 CA CA . E 2 CA A 1 4001 4001 CA CA . F 3 GAI A 1 1008 1008 GAI GAI . G 4 EPE A 1 1009 1009 EPE EPE . H 5 HOH A 1 1 1 HOH HOH . H 5 HOH A 2 2 2 HOH HOH . H 5 HOH A 3 3 3 HOH HOH . H 5 HOH A 4 4 4 HOH HOH . H 5 HOH A 5 5 5 HOH HOH . H 5 HOH A 6 6 6 HOH HOH . H 5 HOH A 7 7 7 HOH HOH . H 5 HOH A 8 8 8 HOH HOH . H 5 HOH A 9 9 9 HOH HOH . H 5 HOH A 10 10 10 HOH HOH . H 5 HOH A 11 11 11 HOH HOH . H 5 HOH A 12 12 12 HOH HOH . H 5 HOH A 13 13 13 HOH HOH . H 5 HOH A 14 14 14 HOH HOH . H 5 HOH A 15 15 15 HOH HOH . H 5 HOH A 16 16 16 HOH HOH . H 5 HOH A 17 17 17 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 C GAI . . . F 3 10.638 15.325 7.622 1 73.01 ? C GAI 1008 A 1 HETATM 2 N N1 GAI . . . F 3 9.571 15.045 8.228 1 73.56 ? N1 GAI 1008 A 1 HETATM 3 N N2 GAI . . . F 3 11.69 15.773 8.293 1 73.11 ? N2 GAI 1008 A 1 HETATM 4 N N3 GAI . . . F 3 10.72 15.172 6.302 1 77.9 ? N3 GAI 1008 A 1 # _model_server_stats.io_time_ms 142 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 4 #