data_1VBP # _model_server_result.job_id mtXYZ3F27DUTNCXSgreXnA _model_server_result.datetime_utc '2025-09-06 06:00:21' _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 1vbp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":502}' # _entry.id 1VBP # _exptl.entry_id 1VBP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 96.063 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SULFATE ION' _entity.pdbx_number_of_molecules 5 _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 1VBP _cell.length_a 212.637 _cell.length_b 212.637 _cell.length_c 212.637 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VBP _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PQS hexameric 6 software_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,C,D,E,F,G,H,I,J 1 1,2 A,B,C,D,E,F,G,H,I,J 2 1,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 18_645 -x+5/4,z-1/4,y+1/4 -1 0 0 0 0 1 0 1 0 265.79625 -53.15925 53.15925 3 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 4 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 MAN MAN C1 O1 . O6 HO6 . sing 2 ? 2 3 2 MAN MAN C1 O1 . O3 HO3 . sing 3 ? 2 4 1 MAN MAN C1 O1 . O3 HO3 . sing 4 ? 3 2 1 MAN MAN C1 O1 . O3 HO3 . sing 5 ? 3 3 1 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 2 n C MAN 1 C 1 MAN A 406 MAN 2 n C MAN 2 C 2 MAN A 407 MAN 2 n C MAN 3 C 3 MAN A 408 MAN 2 n C MAN 4 C 4 MAN A 405 MAN 3 n D MAN 1 D 1 MAN B 406 MAN 3 n D MAN 2 D 2 MAN B 405 MAN 3 n D MAN 3 D 3 MAN B 407 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 C AYA 1 A AYA 1 1_555 A N SER 2 A SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.48 ? covale ? covale2 B C AYA 1 B AYA 1 1_555 B N SER 2 B SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale3 C O6 MAN . C MAN 1 1_555 C C1 MAN . C MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 ? covale ? covale4 C O3 MAN . C MAN 1 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? covale ? covale5 C O3 MAN . C MAN 2 1_555 C C1 MAN . C MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 ? covale ? covale6 D O3 MAN . D MAN 1 1_555 D C1 MAN . D MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 ? covale ? covale7 D O6 MAN . D MAN 1 1_555 D C1 MAN . D MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.525 ? # _chem_comp.formula 'O4 S -2' _chem_comp.formula_weight 96.063 _chem_comp.id SO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'SULFATE ION' _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 S O1 SO4 doub 318 n n S O2 SO4 doub 319 n n S O3 SO4 sing 320 n n S O4 SO4 sing 321 n n # _atom_sites.entry_id 1VBP _atom_sites.fract_transf_matrix[1][1] 0.004703 _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] 0.004703 _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] 0.004703 _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 4 SO4 A 1 502 502 SO4 SO4 . F 4 SO4 A 1 503 503 SO4 SO4 . G 4 SO4 B 1 500 500 SO4 SO4 . H 4 SO4 B 1 501 501 SO4 SO4 . I 4 SO4 B 1 511 511 SO4 SO4 . J 5 HOH B 1 419 419 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 S S SO4 . . . E 4 112.985 103.257 140.349 1 78.27 ? S SO4 502 A 1 HETATM 2 O O1 SO4 . . . E 4 112.282 103.362 138.892 1 78.24 ? O1 SO4 502 A 1 HETATM 3 O O2 SO4 . . . E 4 112.754 104.296 141.333 1 78.24 ? O2 SO4 502 A 1 HETATM 4 O O3 SO4 . . . E 4 113.372 102.067 140.752 1 78.24 ? O3 SO4 502 A 1 HETATM 5 O O4 SO4 . . . E 4 111.611 102.933 140.624 1 78.24 ? O4 SO4 502 A 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 5 #