data_8PN9 # _model_server_result.job_id AuiLiiDfW4QY-cfKvmqWZQ _model_server_result.datetime_utc '2024-11-27 19:39:30' _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 8pn9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":804}' # _entry.id 8PN9 # _exptl.entry_id 8PN9 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 54.938 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _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 8PN9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PN9 _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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,U,V _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 15 _struct_asym.id P _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 9 oligosaccharide 10 oligosaccharide 11 oligosaccharide 12 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 ? 9 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 10 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 10 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 10 4 3 MAN BMA C1 O1 . O3 HO3 . sing 5 ? 10 5 4 MAN MAN C1 O1 . O2 HO2 . sing 6 ? 10 6 5 MAN MAN C1 O1 . O2 HO2 . sing 7 ? 10 7 3 MAN BMA C1 O1 . O6 HO6 . sing 8 ? 10 8 7 MAN MAN C1 O1 . O6 HO6 . sing 9 ? 11 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 11 3 2 BMA NAG C1 O1 . O4 HO4 . sing 11 ? 11 4 3 MAN BMA C1 O1 . O6 HO6 . sing 12 ? 11 5 4 MAN MAN C1 O1 . O3 HO3 . sing 13 ? 11 6 4 MAN MAN C1 O1 . O6 HO6 . sing 14 ? 11 7 3 MAN BMA C1 O1 . O3 HO3 . sing 15 ? 12 2 1 NAG NDG C1 O1 . O4 HO4 . sing 16 ? 12 3 2 BMA NAG C1 O1 . O4 HO4 . sing 17 ? 12 4 3 MAN BMA C1 O1 . O3 HO3 . sing 18 ? 12 5 4 MAN MAN C1 O1 . O2 HO2 . sing 19 ? 12 6 5 MAN MAN C1 O1 . O2 HO2 . sing 20 ? 12 7 6 GLC MAN C1 O1 . O3 HO3 . sing 21 ? 12 8 7 GLC GLC C1 O1 . O3 HO3 . sing 22 ? 12 9 8 GLC GLC C1 O1 . O2 HO2 . sing 23 ? 12 10 3 MAN BMA C1 O1 . O6 HO6 . sing 24 ? 12 11 10 MAN MAN 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 9 n I NAG 1 I 1 NAG I 1 NAG 9 n I NAG 2 I 2 NAG I 2 NAG 10 n J NAG 1 J 1 NAG J 1 NAG 10 n J NAG 2 J 2 NAG J 2 NAG 10 n J BMA 3 J 3 BMA J 3 BMA 10 n J MAN 4 J 4 MAN J 4 MAN 10 n J MAN 5 J 5 MAN J 5 MAN 10 n J MAN 6 J 6 MAN J 6 MAN 10 n J MAN 7 J 7 MAN J 7 MAN 10 n J MAN 8 J 8 MAN J 8 MAN 11 n K NAG 1 K 1 NAG K 1 NAG 11 n K NAG 2 K 2 NAG K 2 NAG 11 n K BMA 3 K 3 BMA K 3 BMA 11 n K MAN 4 K 4 MAN K 6 MAN 11 n K MAN 5 K 5 MAN K 7 MAN 11 n K MAN 6 K 6 MAN K 8 MAN 11 n K MAN 7 K 7 MAN K 4 MAN 12 n L NDG 1 N 1 NDG N 537 NDG 12 n L NAG 2 N 2 NAG N 538 NAG 12 n L BMA 3 N 3 BMA N 539 BMA 12 n L MAN 4 N 4 MAN N 542 MAN 12 n L MAN 5 N 5 MAN N 543 MAN 12 n L MAN 6 N 6 MAN N 544 MAN 12 n L GLC 7 N 7 GLC N 545 GLC 12 n L GLC 8 N 8 GLC N 546 GLC 12 n L GLC 9 N 9 GLC N 547 GLC 12 n L MAN 10 N 10 MAN N 540 MAN 12 n L MAN 11 N 11 MAN N 548 MAN # 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 covale ? covale1 A ND2 ASN 537 A ASN 537 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 548 A ASN 548 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 Q O7 OTP . A OTP 805 1_555 L C1 NDG . N NDG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale4 E ND2 ASN 299 E ASN 299 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale7 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale8 J O3 BMA . J BMA 3 1_555 J C1 MAN . J MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale9 J O6 BMA . J BMA 3 1_555 J C1 MAN . J MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale10 J O2 MAN . J MAN 4 1_555 J C1 MAN . J MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 J O2 MAN . J MAN 5 1_555 J C1 MAN . J MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 J O6 MAN . J MAN 7 1_555 J C1 MAN . J MAN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale13 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 K O4 NAG . K NAG 2 1_555 K C1 BMA . K BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale15 K O6 BMA . K BMA 3 1_555 K C1 MAN . K MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale16 K O3 BMA . K BMA 3 1_555 K C1 MAN . K MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale17 K O3 MAN . K MAN 4 1_555 K C1 MAN . K MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 K O6 MAN . K MAN 4 1_555 K C1 MAN . K MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale19 L O4 NDG . N NDG 1 1_555 L C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale20 L O4 NAG . N NAG 2 1_555 L C1 BMA . N BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale21 L O3 BMA . N BMA 3 1_555 L C1 MAN . N MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale22 L O6 BMA . N BMA 3 1_555 L C1 MAN . N MAN 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale23 L O2 MAN . N MAN 4 1_555 L C1 MAN . N MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale24 L O2 MAN . N MAN 5 1_555 L C1 MAN . N MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale25 L O3 MAN . N MAN 6 1_555 L C1 GLC . N GLC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale26 L O3 GLC . N GLC 7 1_555 L C1 GLC . N GLC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale27 L O2 GLC . N GLC 8 1_555 L C1 GLC . N GLC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale28 L O6 MAN . N MAN 10 1_555 L C1 MAN . N MAN 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? metalc ? metalc1 A OD2 ASP 49 A ASP 49 1_555 P MN MN . A MN 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc2 A OD1 ASP 167 A ASP 167 1_555 P MN MN . A MN 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc3 A OD2 ASP 167 A ASP 167 1_555 P MN MN . A MN 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8PN9 _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 M 13 KZB A 1 801 1401 KZB DIG . N 13 KZB A 1 802 1501 KZB DIG . O 14 EGY A 1 803 816 EGY EGY . P 15 MN A 1 804 817 MN MN . Q 16 OTP A 1 805 1201 OTP DOL . R 17 ZXT A 1 806 1301 ZXT LIG . S 13 KZB F 1 701 801 KZB DIG . T 14 EGY F 1 702 704 EGY EGY . U 13 KZB G 1 501 501 KZB DIG . V 18 HOH A 1 901 1 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id P _atom_site.label_entity_id 15 _atom_site.Cartn_x 162.926 _atom_site.Cartn_y 170.202 _atom_site.Cartn_z 168.092 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 65.21 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 804 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #