data_1GPZ # _model_server_result.job_id jWKaOqbDJ1wPVSGmqKYTQw _model_server_result.datetime_utc '2024-11-22 07:33:45' _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 1gpz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1005}' # _entry.id 1GPZ # _exptl.entry_id 1GPZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 1GPZ _cell.length_a 99.3 _cell.length_b 101.8 _cell.length_c 122.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GPZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,F 1 1 B,D,E,G 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 3 3 2 MAN NAG C1 O1 . O4 HO4 . sing 5 ? 3 4 1 FUC NAG 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 NAG 1 C 1 NAG A 2001 NAG 2 n C NAG 2 C 2 NAG A 2002 NAG 2 n C FUC 3 C 3 FUC A 2003 FUC 3 n D NAG 1 D 1 NAG B 1001 NAG 3 n D NAG 2 D 2 NAG B 1002 NAG 3 n D MAN 3 D 3 MAN B 1004 MAN 3 n D FUC 4 D 4 FUC B 1003 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 3 A CYS 292 1_555 A SG CYS 52 A CYS 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 32 A CYS 321 1_555 A SG CYS 65 A CYS 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf3 A SG CYS 70 A CYS 359 1_555 A SG CYS 123 A CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 A SG CYS 100 A CYS 389 1_555 A SG CYS 141 A CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 A SG CYS 145 A CYS 434 1_555 A SG CYS 271 A CYS 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? disulf ? disulf6 A SG CYS 314 A CYS 603 1_555 A SG CYS 333 A CYS 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 A SG CYS 344 A CYS 633 1_555 A SG CYS 374 A CYS 663 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf8 B SG CYS 3 B CYS 292 1_555 B SG CYS 52 B CYS 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 B SG CYS 32 B CYS 321 1_555 B SG CYS 65 B CYS 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 B SG CYS 70 B CYS 359 1_555 B SG CYS 123 B CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? disulf ? disulf11 B SG CYS 100 B CYS 389 1_555 B SG CYS 141 B CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf12 B SG CYS 145 B CYS 434 1_555 B SG CYS 271 B CYS 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? disulf ? disulf13 B SG CYS 314 B CYS 603 1_555 B SG CYS 333 B CYS 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf14 B SG CYS 344 B CYS 633 1_555 B SG CYS 374 B CYS 663 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 275 A ASN 564 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 B ND2 ASN 208 B ASN 497 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale3 B ND2 ASN 275 B ASN 564 1_555 E C1 NAG . B NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale5 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.399 ? covale ? covale6 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.394 ? covale ? covale7 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale8 D O4 NAG . D NAG 2 1_555 D C1 MAN . D MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.386 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 NAG sing 284 n n C1 O1 NAG sing 285 n n C1 O5 NAG sing 286 n n C1 H1 NAG sing 287 n n C2 C3 NAG sing 288 n n C2 N2 NAG sing 289 n n C2 H2 NAG sing 290 n n C3 C4 NAG sing 291 n n C3 O3 NAG sing 292 n n C3 H3 NAG sing 293 n n C4 C5 NAG sing 294 n n C4 O4 NAG sing 295 n n C4 H4 NAG sing 296 n n C5 C6 NAG sing 297 n n C5 O5 NAG sing 298 n n C5 H5 NAG sing 299 n n C6 O6 NAG sing 300 n n C6 H61 NAG sing 301 n n C6 H62 NAG sing 302 n n C7 C8 NAG sing 303 n n C7 N2 NAG sing 304 n n C7 O7 NAG doub 305 n n C8 H81 NAG sing 306 n n C8 H82 NAG sing 307 n n C8 H83 NAG sing 308 n n N2 HN2 NAG sing 309 n n O1 HO1 NAG sing 310 n n O3 HO3 NAG sing 311 n n O4 HO4 NAG sing 312 n n O6 HO6 NAG sing 313 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 NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1GPZ _atom_sites.fract_transf_matrix[1][1] 0.01007 _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] 0.009823 _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] 0.00817 _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 NAG B 1 1005 3001 NAG NAG . F 5 HOH A 1 2101 4003 HOH HOH . F 5 HOH A 2 2102 4001 HOH HOH . F 5 HOH A 3 2103 4005 HOH HOH . F 5 HOH A 4 2104 4007 HOH HOH . F 5 HOH A 5 2105 4008 HOH HOH . F 5 HOH A 6 2106 4002 HOH HOH . F 5 HOH A 7 2107 4004 HOH HOH . F 5 HOH A 8 2108 4006 HOH HOH . G 5 HOH B 1 1101 4004 HOH HOH . G 5 HOH B 2 1102 4005 HOH HOH . G 5 HOH B 3 1103 4001 HOH HOH . G 5 HOH B 4 1104 4006 HOH HOH . G 5 HOH B 5 1105 4003 HOH HOH . G 5 HOH B 6 1106 4002 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 NAG . . . E 4 75.941 -11.036 -8.806 1 77.48 ? C1 NAG 1005 B 1 HETATM 2 C C2 NAG . . . E 4 75.045 -12.313 -8.889 1 80.08 ? C2 NAG 1005 B 1 HETATM 3 C C3 NAG . . . E 4 73.512 -12.019 -8.926 1 84.48 ? C3 NAG 1005 B 1 HETATM 4 C C4 NAG . . . E 4 73.091 -10.881 -8.001 1 85.52 ? C4 NAG 1005 B 1 HETATM 5 C C5 NAG . . . E 4 74.022 -9.687 -8.261 1 84.99 ? C5 NAG 1005 B 1 HETATM 6 C C6 NAG . . . E 4 73.705 -8.445 -7.448 1 87.5 ? C6 NAG 1005 B 1 HETATM 7 C C7 NAG . . . E 4 75.136 -14.347 -10.2 1 82.7 ? C7 NAG 1005 B 1 HETATM 8 C C8 NAG . . . E 4 74.89 -14.911 -11.6 1 85.17 ? C8 NAG 1005 B 1 HETATM 9 N N2 NAG . . . E 4 75.406 -13.048 -10.089 1 80.37 ? N2 NAG 1005 B 1 HETATM 10 O O3 NAG . . . E 4 72.767 -13.18 -8.57 1 85.27 ? O3 NAG 1005 B 1 HETATM 11 O O4 NAG . . . E 4 71.73 -10.543 -8.265 1 79.04 ? O4 NAG 1005 B 1 HETATM 12 O O5 NAG . . . E 4 75.366 -10.059 -7.92 1 82.66 ? O5 NAG 1005 B 1 HETATM 13 O O6 NAG . . . E 4 74.645 -7.404 -7.696 1 83.84 ? O6 NAG 1005 B 1 HETATM 14 O O7 NAG . . . E 4 75.079 -15.094 -9.229 1 79.39 ? O7 NAG 1005 B 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #