data_5NAN # _model_server_result.job_id DvVBz_f8mik2BOL2tUdx6w _model_server_result.datetime_utc '2024-11-09 02:47:24' _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 5nan # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":402}' # _entry.id 5NAN # _exptl.entry_id 5NAN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 90.13 _cell.angle_gamma 90 _cell.entry_id 5NAN _cell.length_a 100.002 _cell.length_b 66.103 _cell.length_c 104.119 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NAN _symmetry.cell_setting ? _symmetry.Int_Tables_number 3 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 2 1' # 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 trimeric 3 software_defined_assembly 1 PISA trimeric 3 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,F,G,H 1 1 C,D,E,I,J,K,L 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 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 1 GAL 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 4 n G NAG 1 G 1 NAG F 201 NAG 4 n G NAG 2 G 2 NAG F 202 NAG 4 n G GAL 3 G 3 GAL F 203 GAL # 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 71 A CYS 94 1_555 A SG CYS 121 A CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf2 A SG CYS 76 A CYS 99 1_555 A SG CYS 123 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 106 A CYS 129 1_555 F SG CYS 23 F CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 11 B CYS 43 1_555 B SG CYS 18 B CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 25 B CYS 57 1_555 B SG CYS 94 B CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf6 B SG CYS 153 B CYS 185 1_555 B SG CYS 164 B CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 B SG CYS 213 B CYS 245 1_555 B SG CYS 244 B CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 B SG CYS 245 B CYS 277 1_555 B SG CYS 271 B CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf9 B SG CYS 258 B CYS 290 1_555 B SG CYS 262 B CYS 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf10 C SG CYS 11 C CYS 43 1_555 C SG CYS 18 C CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf11 C SG CYS 25 C CYS 57 1_555 C SG CYS 94 C CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf12 C SG CYS 153 C CYS 185 1_555 C SG CYS 164 C CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf13 C SG CYS 213 C CYS 245 1_555 C SG CYS 244 C CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf14 C SG CYS 245 C CYS 277 1_555 C SG CYS 271 C CYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf15 C SG CYS 258 C CYS 290 1_555 C SG CYS 262 C CYS 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf16 D SG CYS 71 D CYS 94 1_555 D SG CYS 121 D CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf17 D SG CYS 76 D CYS 99 1_555 D SG CYS 123 D CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf18 D SG CYS 106 D CYS 129 1_555 E SG CYS 23 E CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf19 E SG CYS 78 E CYS 102 1_555 E SG CYS 128 E CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf20 E SG CYS 83 E CYS 107 1_555 E SG CYS 130 E CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf21 F SG CYS 78 F CYS 102 1_555 F SG CYS 128 F CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf22 F SG CYS 83 F CYS 107 1_555 F SG CYS 130 F CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 B ND2 ASN 193 B ASN 225 1_555 H C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 C ND2 ASN 22 C ASN 54 1_555 I C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 C ND2 ASN 193 C ASN 225 1_555 J C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale4 C ND2 ASN 233 C ASN 265 1_555 K C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 E ND2 ASN 59 E ASN 83 1_555 L C1 NAG . E NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 F ND2 ASN 59 F ASN 83 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale8 G O6 NAG . G NAG 1 1_555 G C1 GAL . G GAL 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 5NAN _atom_sites.fract_transf_matrix[1][1] 0.01 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000023 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015128 _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] 0.009604 _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 H 5 NAG B 1 401 310 NAG NAG . I 5 NAG C 1 401 310 NAG NAG . J 5 NAG C 1 402 311 NAG NAG . K 5 NAG C 1 403 312 NAG NAG . L 5 NAG E 1 201 201 NAG NAG . # 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 . . . J 5 -64.934 -3.139 52.416 1 201.92 ? C1 NAG 402 C 1 HETATM 2 C C2 NAG . . . J 5 -64.82 -1.622 52.552 1 203.41 ? C2 NAG 402 C 1 HETATM 3 C C3 NAG . . . J 5 -63.331 -1.425 52.268 1 201.29 ? C3 NAG 402 C 1 HETATM 4 C C4 NAG . . . J 5 -62.488 -2.038 53.387 1 201.62 ? C4 NAG 402 C 1 HETATM 5 C C5 NAG . . . J 5 -62.857 -3.506 53.613 1 200.01 ? C5 NAG 402 C 1 HETATM 6 C C6 NAG . . . J 5 -62.383 -4.065 54.941 1 198.73 ? C6 NAG 402 C 1 HETATM 7 C C7 NAG . . . J 5 -66.909 -0.521 51.85 1 204.1 ? C7 NAG 402 C 1 HETATM 8 C C8 NAG . . . J 5 -67.576 0.295 50.783 1 204.94 ? C8 NAG 402 C 1 HETATM 9 N N2 NAG . . . J 5 -65.639 -0.881 51.605 1 201.56 ? N2 NAG 402 C 1 HETATM 10 O O3 NAG . . . J 5 -63.031 -0.043 52.116 1 202.79 ? O3 NAG 402 C 1 HETATM 11 O O4 NAG . . . J 5 -61.119 -1.953 53.013 1 199.09 ? O4 NAG 402 C 1 HETATM 12 O O5 NAG . . . J 5 -64.286 -3.692 53.571 1 203.84 ? O5 NAG 402 C 1 HETATM 13 O O6 NAG . . . J 5 -63.303 -3.818 55.994 1 201.35 ? O6 NAG 402 C 1 HETATM 14 O O7 NAG . . . J 5 -67.496 -0.852 52.878 1 206.36 ? O7 NAG 402 C 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #