data_4GMT # _model_server_result.job_id K_oHdxoF3q0xQtiV3VYEQQ _model_server_result.datetime_utc '2024-10-17 11:22:48' _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 4gmt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 4GMT # _exptl.entry_id 4GMT _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 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 120 _cell.entry_id 4GMT _cell.length_a 106.84 _cell.length_b 106.84 _cell.length_c 185.52 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GMT _symmetry.cell_setting ? _symmetry.Int_Tables_number 153 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 1 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F,I,J 1 1 C,D,G,H,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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 E NAG 1 A 1 NAG H 301 NAG 3 n E NAG 2 A 2 NAG H 302 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 23 L CYS 23 1_555 A SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 134 L CYS 134 1_555 A SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 B SG CYS 145 H CYS 140 1_555 B SG CYS 200 H CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf5 C SG CYS 23 M CYS 23 1_555 C SG CYS 88 M CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf6 C SG CYS 134 M CYS 134 1_555 C SG CYS 194 M CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 D SG CYS 22 I CYS 22 1_555 D SG CYS 96 I CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf8 D SG CYS 145 I CYS 140 1_555 D SG CYS 200 I CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? covale ? covale1 B C PCA 1 H PCA 1 1_555 B N VAL 2 H VAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 B ND2 ASN 73 H ASN 72 1_555 E C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 D C PCA 1 I PCA 1 1_555 D N VAL 2 I VAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 D ND2 ASN 73 I ASN 72 1_555 G C1 NAG . I NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 E O4 NAG . A NAG 1 1_555 E C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 4GMT _atom_sites.fract_transf_matrix[1][1] 0.00936 _atom_sites.fract_transf_matrix[1][2] 0.005404 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010808 _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] 0.00539 _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 F 4 SO4 H 1 303 1 SO4 SO4 . G 5 NAG I 1 301 301 NAG NAG . H 4 SO4 I 1 302 2 SO4 SO4 . I 6 HOH L 1 301 1 HOH HOH . I 6 HOH L 2 302 2 HOH HOH . I 6 HOH L 3 303 5 HOH HOH . I 6 HOH L 4 304 9 HOH HOH . I 6 HOH L 5 305 10 HOH HOH . I 6 HOH L 6 306 11 HOH HOH . I 6 HOH L 7 307 12 HOH HOH . I 6 HOH L 8 308 13 HOH HOH . I 6 HOH L 9 309 14 HOH HOH . I 6 HOH L 10 310 16 HOH HOH . I 6 HOH L 11 311 17 HOH HOH . J 6 HOH H 1 401 6 HOH HOH . J 6 HOH H 2 402 7 HOH HOH . J 6 HOH H 3 403 8 HOH HOH . J 6 HOH H 4 404 19 HOH HOH . J 6 HOH H 5 405 20 HOH HOH . J 6 HOH H 6 406 21 HOH HOH . J 6 HOH H 7 407 49 HOH HOH . J 6 HOH H 8 408 54 HOH HOH . K 6 HOH M 1 301 22 HOH HOH . K 6 HOH M 2 302 23 HOH HOH . K 6 HOH M 3 303 24 HOH HOH . K 6 HOH M 4 304 25 HOH HOH . K 6 HOH M 5 305 26 HOH HOH . K 6 HOH M 6 306 27 HOH HOH . K 6 HOH M 7 307 28 HOH HOH . K 6 HOH M 8 308 30 HOH HOH . K 6 HOH M 9 309 31 HOH HOH . K 6 HOH M 10 310 32 HOH HOH . K 6 HOH M 11 311 33 HOH HOH . K 6 HOH M 12 312 34 HOH HOH . K 6 HOH M 13 313 37 HOH HOH . K 6 HOH M 14 314 41 HOH HOH . K 6 HOH M 15 315 47 HOH HOH . L 6 HOH I 1 401 38 HOH HOH . L 6 HOH I 2 402 39 HOH HOH . L 6 HOH I 3 403 40 HOH HOH . L 6 HOH I 4 404 42 HOH HOH . L 6 HOH I 5 405 43 HOH HOH . L 6 HOH I 6 406 44 HOH HOH . L 6 HOH I 7 407 45 HOH HOH . L 6 HOH I 8 408 51 HOH HOH . L 6 HOH I 9 409 52 HOH HOH . L 6 HOH I 10 410 53 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 . . . G 5 50.075 -21.641 72.622 1 106.08 ? C1 NAG 301 I 1 HETATM 2 C C2 NAG . . . G 5 50.374 -23.142 72.691 1 120.21 ? C2 NAG 301 I 1 HETATM 3 C C3 NAG . . . G 5 51.726 -23.457 73.33 1 126.71 ? C3 NAG 301 I 1 HETATM 4 C C4 NAG . . . G 5 52.825 -22.592 72.735 1 131.07 ? C4 NAG 301 I 1 HETATM 5 C C5 NAG . . . G 5 52.404 -21.128 72.783 1 126.6 ? C5 NAG 301 I 1 HETATM 6 C C6 NAG . . . G 5 53.444 -20.213 72.146 1 128.8 ? C6 NAG 301 I 1 HETATM 7 C C7 NAG . . . G 5 48.511 -24.705 72.852 1 126.51 ? C7 NAG 301 I 1 HETATM 8 C C8 NAG . . . G 5 47.907 -25.733 73.765 1 126.75 ? C8 NAG 301 I 1 HETATM 9 N N2 NAG . . . G 5 49.327 -23.825 73.429 1 125.65 ? N2 NAG 301 I 1 HETATM 10 O O3 NAG . . . G 5 52.044 -24.815 73.124 1 127.36 ? O3 NAG 301 I 1 HETATM 11 O O4 NAG . . . G 5 54.024 -22.787 73.454 1 135.16 ? O4 NAG 301 I 1 HETATM 12 O O5 NAG . . . G 5 51.188 -20.95 72.087 1 115.98 ? O5 NAG 301 I 1 HETATM 13 O O6 NAG . . . G 5 53.351 -20.298 70.74 1 127.32 ? O6 NAG 301 I 1 HETATM 14 O O7 NAG . . . G 5 48.242 -24.696 71.649 1 124.38 ? O7 NAG 301 I 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #