data_4ZPO # _model_server_result.job_id Esvnxb454HYlZU-fVcCuzQ _model_server_result.datetime_utc '2025-09-07 21:35:36' _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 4zpo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":409}' # _entry.id 4ZPO # _exptl.entry_id 4ZPO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description alpha-D-mannopyranose _entity.pdbx_number_of_molecules 2 _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 4ZPO _cell.length_a 108.637 _cell.length_b 108.637 _cell.length_c 96.614 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZPO _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 I N N ? 4 J 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 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 FUC _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 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _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 B NAG 1 B 1 NAG A 409 NAG 2 n B FUC 2 B 2 FUC A 411 FUC # 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 67 A CYS 67 1_555 A SG CYS 73 A CYS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A OG SER 194 A SER 194 1_555 I C1 MAN . A MAN 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A OG1 THR 196 A THR 196 1_555 J C1 MAN . A MAN 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 236 A ASN 236 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 A OE1 GLU 8 A GLU 8 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc2 A OE2 GLU 8 A GLU 8 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc3 A OE2 GLU 9 A GLU 9 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc4 A OD1 ASP 62 A ASP 62 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc5 A OE1 GLU 64 A GLU 64 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc6 A OE2 GLU 64 A GLU 64 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc7 A OE2 GLU 64 A GLU 64 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc8 A OD1 ASP 96 A ASP 96 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc9 A O LEU 97 A LEU 97 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc10 A OD1 ASN 98 A ASN 98 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc11 A OD1 ASP 99 A ASP 99 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc12 A OD2 ASP 99 A ASP 99 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc13 A O ASN 100 A ASN 100 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc14 A OE2 GLU 115 A GLU 115 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc15 A OE1 GLU 115 A GLU 115 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc16 A OD1 ASP 130 A ASP 130 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc17 A OD2 ASP 130 A ASP 130 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.554 ? metalc ? metalc18 A OD2 ASP 132 A ASP 132 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc19 A OD1 ASP 132 A ASP 132 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc20 A O ASN 136 A ASN 136 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc21 A OD1 ASP 172 A ASP 172 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc22 A OE1 GLU 174 A GLU 174 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc23 A OE2 GLU 174 A GLU 174 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.062 ? metalc ? metalc24 A OD2 ASP 187 A ASP 187 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.035 ? metalc ? metalc25 A OD1 ASP 205 A ASP 205 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc26 A O VAL 206 A VAL 206 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc27 A OD1 ASN 207 A ASN 207 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.935 ? metalc ? metalc28 A OD2 ASP 208 A ASP 208 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc29 A OD1 ASP 208 A ASP 208 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc30 A O ASN 209 A ASN 209 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc31 A OD1 ASP 239 A ASP 239 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc32 A OD2 ASP 239 A ASP 239 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? metalc ? metalc33 A OD2 ASP 241 A ASP 241 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc34 A OD1 ASP 241 A ASP 241 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? metalc ? metalc35 A O ASN 245 A ASN 245 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc36 A OD2 ASP 295 A ASP 295 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? # _chem_comp.formula 'C6 H12 O6' _chem_comp.formula_weight 180.156 _chem_comp.id MAN _chem_comp.mon_nstd_flag . _chem_comp.name alpha-D-mannopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-D-mannose;D-mannose;mannose # 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 C1 C2 MAN sing 241 n n C1 O1 MAN sing 242 n n C1 O5 MAN sing 243 n n C1 H1 MAN sing 244 n n C2 C3 MAN sing 245 n n C2 O2 MAN sing 246 n n C2 H2 MAN sing 247 n n C3 C4 MAN sing 248 n n C3 O3 MAN sing 249 n n C3 H3 MAN sing 250 n n C4 C5 MAN sing 251 n n C4 O4 MAN sing 252 n n C4 H4 MAN sing 253 n n C5 C6 MAN sing 254 n n C5 O5 MAN sing 255 n n C5 H5 MAN sing 256 n n C6 O6 MAN sing 257 n n C6 H61 MAN sing 258 n n C6 H62 MAN sing 259 n n O1 HO1 MAN sing 260 n n O2 HO2 MAN sing 261 n n O3 HO3 MAN sing 262 n n O4 HO4 MAN sing 263 n n O6 HO6 MAN sing 264 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version MAN DManpa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 MAN a-D-mannopyranose 'COMMON NAME' GMML 1 MAN a-D-Manp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 MAN Man 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 4ZPO _atom_sites.fract_transf_matrix[1][1] 0.009205 _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] 0.009205 _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] 0.01035 _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 C 3 CA A 1 401 400 CA CA . D 3 CA A 1 402 401 CA CA . E 3 CA A 1 403 403 CA CA . F 3 CA A 1 404 404 CA CA . G 3 CA A 1 405 405 CA CA . H 3 CA A 1 406 406 CA CA . I 4 MAN A 1 409 801 MAN MAN . J 4 MAN A 1 410 802 MAN MAN . K 5 MPD A 1 411 1 MPD MPD . L 6 HOH A 1 501 13 HOH HOH . L 6 HOH A 2 502 5 HOH HOH . L 6 HOH A 3 503 10 HOH HOH . L 6 HOH A 4 504 9 HOH HOH . L 6 HOH A 5 505 2 HOH HOH . L 6 HOH A 6 506 7 HOH HOH . L 6 HOH A 7 507 14 HOH HOH . L 6 HOH A 8 508 4 HOH HOH . L 6 HOH A 9 509 15 HOH HOH . L 6 HOH A 10 510 3 HOH HOH . L 6 HOH A 11 511 1 HOH HOH . L 6 HOH A 12 512 8 HOH HOH . L 6 HOH A 13 513 6 HOH HOH . L 6 HOH A 14 514 12 HOH HOH . L 6 HOH A 15 515 11 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 C1 MAN . . . I 4 -0.964 17.77 52.203 1 83.97 ? C1 MAN 409 A 1 HETATM 2 C C2 MAN . . . I 4 -0.831 18.85 51.113 1 94.21 ? C2 MAN 409 A 1 HETATM 3 C C3 MAN . . . I 4 0.413 19.7 51.374 1 99.46 ? C3 MAN 409 A 1 HETATM 4 C C4 MAN . . . I 4 0.424 20.238 52.812 1 102.04 ? C4 MAN 409 A 1 HETATM 5 C C5 MAN . . . I 4 0.305 19.07 53.803 1 97.08 ? C5 MAN 409 A 1 HETATM 6 C C6 MAN . . . I 4 0.2 19.53 55.243 1 100.57 ? C6 MAN 409 A 1 HETATM 7 O O2 MAN . . . I 4 -1.935 19.759 51.148 1 94.41 ? O2 MAN 409 A 1 HETATM 8 O O3 MAN . . . I 4 0.526 20.776 50.444 1 100.43 ? O3 MAN 409 A 1 HETATM 9 O O4 MAN . . . I 4 1.637 20.934 53.057 1 110.14 ? O4 MAN 409 A 1 HETATM 10 O O5 MAN . . . I 4 -0.885 18.306 53.506 1 92.19 ? O5 MAN 409 A 1 HETATM 11 O O6 MAN . . . I 4 -0.364 18.469 56.003 1 106.18 ? O6 MAN 409 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 11 #