data_8DC9 # _model_server_result.job_id tliSEn3ufmzOTNxqFerDPg _model_server_result.datetime_utc '2024-11-30 00:59:03' _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 8dc9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":510}' # _entry.id 8DC9 # _exptl.entry_id 8DC9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _entity.pdbx_number_of_molecules 4 _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 8DC9 _cell.length_a 80.741 _cell.length_b 137.284 _cell.length_c 150.157 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DC9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 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,C,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,GA 1 1 B,D,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,HA 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 Q N N ? 5 R N N ? 5 CA N N ? 5 DA N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 FRU _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n C GLC 1 C 1 GLC A 502 SUC 2 n C FRU 2 C 2 FRU A 502 SUC 2 n D GLC 1 D 1 GLC B 502 SUC 2 n D FRU 2 D 2 FRU B 502 SUC # 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 C C1 GLC . C GLC 1 1_555 C O2 FRU . C FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 D C1 GLC . D GLC 1 1_555 D O2 FRU . D FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? metalc ? metalc1 A OD2 ASP 115 A ASP 95 1_555 Q MN MN . A MN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc2 A SG CYS 118 A CYS 98 1_555 Q MN MN . A MN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc3 A SG CYS 118 A CYS 98 1_555 R MN MN . A MN 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc4 A NE2 HIS 223 A HIS 203 1_555 Q MN MN . A MN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc5 A NE2 HIS 254 A HIS 234 1_555 R MN MN . A MN 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc6 A NE2 HIS 349 A HIS 329 1_555 R MN MN . A MN 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? metalc ? metalc7 E O3B GTP . A GTP 501 1_555 R MN MN . A MN 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? metalc ? metalc8 E O2A GTP . A GTP 501 1_555 R MN MN . A MN 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc9 B OD2 ASP 115 B ASP 95 1_555 DA MN MN . B MN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc10 B SG CYS 118 B CYS 98 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc11 B SG CYS 118 B CYS 98 1_555 DA MN MN . B MN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc12 B NE2 HIS 223 B HIS 203 1_555 DA MN MN . B MN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc13 B NE2 HIS 254 B HIS 234 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc14 B NE2 HIS 349 B HIS 329 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc15 T O3G GTP . B GTP 501 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc16 T O1B GTP . B GTP 501 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc17 T O2A GTP . B GTP 501 1_555 CA MN MN . B MN 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc18 T O2G GTP . B GTP 501 1_555 DA MN MN . B MN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc19 T O1B GTP . B GTP 501 1_555 DA MN MN . B MN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? # _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 8DC9 _atom_sites.fract_transf_matrix[1][1] 0.012385 _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] 0.007284 _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] 0.00666 _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 GTP A 1 501 501 GTP GTP . F 4 SO4 A 1 502 3 SO4 SO4 . G 4 SO4 A 1 503 4 SO4 SO4 . H 4 SO4 A 1 504 6 SO4 SO4 . I 4 SO4 A 1 505 8 SO4 SO4 . J 4 SO4 A 1 506 9 SO4 SO4 . K 4 SO4 A 1 507 10 SO4 SO4 . L 4 SO4 A 1 508 12 SO4 SO4 . M 4 SO4 A 1 509 13 SO4 SO4 . N 4 SO4 A 1 510 17 SO4 SO4 . O 4 SO4 A 1 511 18 SO4 SO4 . P 4 SO4 A 1 512 20 SO4 SO4 . Q 5 MN A 1 513 3 MN MN . R 5 MN A 1 514 4 MN MN . S 6 CL A 1 515 3 CL CL . T 3 GTP B 1 501 501 GTP GTP . U 4 SO4 B 1 502 1 SO4 SO4 . V 4 SO4 B 1 503 2 SO4 SO4 . W 4 SO4 B 1 504 5 SO4 SO4 . X 4 SO4 B 1 505 11 SO4 SO4 . Y 4 SO4 B 1 506 14 SO4 SO4 . Z 4 SO4 B 1 507 15 SO4 SO4 . AA 4 SO4 B 1 508 16 SO4 SO4 . BA 4 SO4 B 1 509 19 SO4 SO4 . CA 5 MN B 1 510 1 MN MN . DA 5 MN B 1 511 2 MN MN . EA 6 CL B 1 512 1 CL CL . FA 6 CL B 1 513 2 CL CL . GA 7 HOH A 1 601 28 HOH HOH . GA 7 HOH A 2 602 24 HOH HOH . GA 7 HOH A 3 603 25 HOH HOH . GA 7 HOH A 4 604 10 HOH HOH . GA 7 HOH A 5 605 27 HOH HOH . GA 7 HOH A 6 606 20 HOH HOH . GA 7 HOH A 7 607 21 HOH HOH . GA 7 HOH A 8 608 16 HOH HOH . GA 7 HOH A 9 609 15 HOH HOH . HA 7 HOH B 1 601 9 HOH HOH . HA 7 HOH B 2 602 8 HOH HOH . HA 7 HOH B 3 603 6 HOH HOH . HA 7 HOH B 4 604 22 HOH HOH . HA 7 HOH B 5 605 1 HOH HOH . HA 7 HOH B 6 606 17 HOH HOH . HA 7 HOH B 7 607 7 HOH HOH . HA 7 HOH B 8 608 19 HOH HOH . HA 7 HOH B 9 609 3 HOH HOH . HA 7 HOH B 10 610 2 HOH HOH . HA 7 HOH B 11 611 26 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 CA _atom_site.label_entity_id 5 _atom_site.Cartn_x 41.255 _atom_site.Cartn_y -2.53 _atom_site.Cartn_z 52.264 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 61.5 _atom_site.pdbx_formal_charge 2 _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 510 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #