data_4HQP # _model_server_result.job_id KivmGVSh4GAOm4Gd5ActbQ _model_server_result.datetime_utc '2024-11-25 09:26:25' _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 4hqp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":802}' # _entry.id 4HQP # _exptl.entry_id 4HQP _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 6 _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 120 _cell.entry_id 4HQP _cell.length_a 142.15 _cell.length_b 142.15 _cell.length_c 518.135 _cell.Z_PDB 60 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HQP _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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,N,O,P,Q _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 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n K NAG 1 K 1 NAG B 801 NAG 3 n K NAG 2 K 2 NAG B 802 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 A SG CYS 123 A CYS 125 1_555 A SG CYS 136 A CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 184 A CYS 186 1_555 A SG CYS 185 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf3 B SG CYS 123 B CYS 125 1_555 B SG CYS 136 B CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 184 B CYS 186 1_555 B SG CYS 185 B CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf5 C SG CYS 123 C CYS 125 1_555 C SG CYS 136 C CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 C SG CYS 184 C CYS 186 1_555 C SG CYS 185 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 D SG CYS 123 D CYS 125 1_555 D SG CYS 136 D CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 D SG CYS 184 D CYS 186 1_555 D SG CYS 185 D CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf9 E SG CYS 123 E CYS 125 1_555 E SG CYS 136 E CYS 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 E SG CYS 184 E CYS 186 1_555 E SG CYS 185 E CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf11 F SG CYS 3 F CYS 3 1_555 F SG CYS 16 F CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf12 F SG CYS 3 F CYS 3 1_555 F SG CYS 23 F CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 F SG CYS 16 F CYS 16 1_555 F SG CYS 44 F CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf14 F SG CYS 29 F CYS 29 1_555 F SG CYS 33 F CYS 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 F SG CYS 48 F CYS 48 1_555 F SG CYS 59 F CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf16 F SG CYS 60 F CYS 60 1_555 F SG CYS 65 F CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf17 G SG CYS 3 G CYS 3 1_555 G SG CYS 16 G CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 G SG CYS 3 G CYS 3 1_555 G SG CYS 23 G CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf19 G SG CYS 16 G CYS 16 1_555 G SG CYS 44 G CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf20 G SG CYS 29 G CYS 29 1_555 G SG CYS 33 G CYS 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf21 G SG CYS 48 G CYS 48 1_555 G SG CYS 59 G CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf22 G SG CYS 60 G CYS 60 1_555 G SG CYS 65 G CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf23 H SG CYS 3 H CYS 3 1_555 H SG CYS 16 H CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf24 H SG CYS 3 H CYS 3 1_555 H SG CYS 23 H CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf25 H SG CYS 16 H CYS 16 1_555 H SG CYS 44 H CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf26 H SG CYS 29 H CYS 29 1_555 H SG CYS 33 H CYS 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf27 H SG CYS 48 H CYS 48 1_555 H SG CYS 59 H CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf28 H SG CYS 60 H CYS 60 1_555 H SG CYS 65 H CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf29 I SG CYS 3 I CYS 3 1_555 I SG CYS 16 I CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf30 I SG CYS 3 I CYS 3 1_555 I SG CYS 23 I CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf31 I SG CYS 16 I CYS 16 1_555 I SG CYS 44 I CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf32 I SG CYS 29 I CYS 29 1_555 I SG CYS 33 I CYS 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf33 I SG CYS 48 I CYS 48 1_555 I SG CYS 59 I CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf34 I SG CYS 60 I CYS 60 1_555 I SG CYS 65 I CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf35 J SG CYS 3 J CYS 3 1_555 J SG CYS 16 J CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf36 J SG CYS 3 J CYS 3 1_555 J SG CYS 23 J CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf37 J SG CYS 16 J CYS 16 1_555 J SG CYS 44 J CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf38 J SG CYS 29 J CYS 29 1_555 J SG CYS 33 J CYS 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf39 J SG CYS 48 J CYS 48 1_555 J SG CYS 59 J CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf40 J SG CYS 60 J CYS 60 1_555 J SG CYS 65 J CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 64 A ASN 66 1_555 L C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 A ND2 ASN 106 A ASN 108 1_555 M C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale3 B ND2 ASN 64 B ASN 66 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 B ND2 ASN 106 B ASN 108 1_555 N C1 NAG . B NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale5 C ND2 ASN 64 C ASN 66 1_555 O C1 NAG . C NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale6 C ND2 ASN 106 C ASN 108 1_555 P C1 NAG . C NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 D ND2 ASN 64 D ASN 66 1_555 Q C1 NAG . D NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale8 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG 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 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 4HQP _atom_sites.fract_transf_matrix[1][1] 0.007035 _atom_sites.fract_transf_matrix[1][2] 0.004062 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008123 _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] 0.00193 _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 L 4 NAG A 1 801 801 NAG NAG . M 4 NAG A 1 802 901 NAG NAG . N 4 NAG B 1 803 901 NAG NAG . O 4 NAG C 1 801 801 NAG NAG . P 4 NAG C 1 802 901 NAG NAG . Q 4 NAG D 1 801 801 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 . . . M 4 39.399 75.38 -6.617 1 143.95 ? C1 NAG 802 A 1 HETATM 2 C C2 NAG . . . M 4 40.005 74.448 -7.703 1 143.82 ? C2 NAG 802 A 1 HETATM 3 C C3 NAG . . . M 4 39.466 74.764 -9.101 1 143.68 ? C3 NAG 802 A 1 HETATM 4 C C4 NAG . . . M 4 38.006 75.183 -9.026 1 143.62 ? C4 NAG 802 A 1 HETATM 5 C C5 NAG . . . M 4 37.855 76.461 -8.186 1 143.63 ? C5 NAG 802 A 1 HETATM 6 C C6 NAG . . . M 4 36.532 76.547 -7.451 1 143.54 ? C6 NAG 802 A 1 HETATM 7 C C7 NAG . . . M 4 42.05 75.752 -7.629 1 143.78 ? C7 NAG 802 A 1 HETATM 8 C C8 NAG . . . M 4 41.963 76.691 -8.829 1 143.69 ? C8 NAG 802 A 1 HETATM 9 N N2 NAG . . . M 4 41.456 74.561 -7.728 1 143.78 ? N2 NAG 802 A 1 HETATM 10 O O3 NAG . . . M 4 39.597 73.624 -9.938 1 143.74 ? O3 NAG 802 A 1 HETATM 11 O O4 NAG . . . M 4 37.519 75.423 -10.341 1 143.46 ? O4 NAG 802 A 1 HETATM 12 O O5 NAG . . . M 4 38.924 76.611 -7.201 1 143.82 ? O5 NAG 802 A 1 HETATM 13 O O6 NAG . . . M 4 35.521 77.087 -8.292 1 143.45 ? O6 NAG 802 A 1 HETATM 14 O O7 NAG . . . M 4 42.67 76.106 -6.622 1 143.79 ? O7 NAG 802 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #