data_5AVZ # _model_server_result.job_id yncDGJowJKutlVyJbXOyrw _model_server_result.datetime_utc '2024-11-24 09:39:52' _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 5avz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":2002}' # _entry.id 5AVZ # _exptl.entry_id 5AVZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM 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 104.52 _cell.angle_gamma 90 _cell.entry_id 5AVZ _cell.length_a 222.704 _cell.length_b 50.914 _cell.length_c 164.695 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5AVZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 4 n D NAG 1 C 1 NAG B 4001 NAG 4 n D NAG 2 C 2 NAG B 4002 NAG # 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 B SG CYS 127 B CYS 127 1_555 B SG CYS 150 B CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 B SG CYS 160 B CYS 160 1_555 B SG CYS 176 B CYS 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 B SG CYS 215 B CYS 215 1_555 B SG CYS 278 B CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 B ND2 ASN 114 B ASN 114 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 B ND2 ASN 159 B ASN 159 1_555 L C1 NAG . B NAG 4021 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? metalc ? metalc1 A O VAL 334 A VAL 329 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.945 ? metalc ? metalc2 A O ALA 335 A ALA 330 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? metalc ? metalc3 A O VAL 337 A VAL 332 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc4 A OE1 GLU 339 A GLU 334 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.249 ? metalc ? metalc5 A OD2 ASP 381 A ASP 376 1_555 E MG MF4 . A MF4 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? metalc ? metalc6 A OD1 ASP 381 A ASP 376 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc7 A O THR 383 A THR 378 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? metalc ? metalc8 A OD2 ASP 722 A ASP 717 1_555 F MG MG . A MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? metalc ? metalc9 A O LEU 730 A LEU 725 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.982 ? metalc ? metalc10 A O LEU 730 A LEU 725 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.982 ? metalc ? metalc11 A O LYS 731 A LYS 726 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.841 ? metalc ? metalc12 A O LYS 731 A LYS 726 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.841 ? metalc ? metalc13 A O ALA 733 A ALA 728 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.688 ? metalc ? metalc14 A O ALA 733 A ALA 728 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.688 ? metalc ? metalc15 A OD1 ASP 752 A ASP 747 1_555 I K K . A K 2005 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.961 ? metalc ? metalc16 A OD1 ASP 752 A ASP 747 1_555 J TL TL . A TL 2006 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.961 ? metalc ? metalc17 A O THR 784 A THR 779 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc18 A OG SER 787 A SER 782 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc19 A OD1 ASN 788 A ASN 783 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc20 A OD1 ASN 788 A ASN 783 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.018 ? metalc ? metalc21 A OE2 GLU 791 A GLU 786 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.924 ? metalc ? metalc22 A OD1 ASP 816 A ASP 811 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.21 ? metalc ? metalc23 A OD2 ASP 816 A ASP 811 1_555 G TL TL . A TL 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc24 A OD2 ASP 816 A ASP 811 1_555 H TL TL . A TL 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.892 ? metalc ? metalc25 G TL TL . A TL 2003 1_555 M O HOH . A HOH 2101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5AVZ _atom_sites.fract_transf_matrix[1][1] 0.00449 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001163 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019641 _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] 0.006272 _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 5 MF4 A 1 2001 2001 MF4 MF4 . F 6 MG A 1 2002 2002 MG MG . G 7 TL A 1 2003 2003 TL TL . H 7 TL A 1 2004 2004 TL TL . I 8 K A 1 2005 2005 K K . J 7 TL A 1 2006 2006 TL TL . K 9 CLR B 1 3001 3001 CLR CLR . L 10 NAG B 1 4021 4021 NAG NAG . M 11 HOH A 1 2101 2101 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 6 _atom_site.Cartn_x 131.262 _atom_site.Cartn_y 30.543 _atom_site.Cartn_z 57.132 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 94.56 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 2002 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 322 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #