data_2VIS # _model_server_result.job_id mwBVjTz9VSceYkrBr36mWQ _model_server_result.datetime_utc '2024-12-04 06:25:03' _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 2vis # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":4}' # _entry.id 2VIS # _exptl.entry_id 2VIS _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 2VIS _cell.length_a 85.5 _cell.length_b 85.5 _cell.length_c 515 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VIS _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 22 A CYS 22 1_555 A SG CYS 90 A CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf2 A SG CYS 137 A CYS 137 1_555 A SG CYS 196 A CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 B SG CYS 22 B CYS 22 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 149 B CYS 149 1_555 B SG CYS 204 B CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 C SG CYS 25 C CYS 52 1_555 C SG CYS 250 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 C SG CYS 37 C CYS 64 1_555 C SG CYS 49 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf7 C SG CYS 70 C CYS 97 1_555 C SG CYS 112 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 C SG CYS 254 C CYS 281 1_555 C SG CYS 278 C CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? covale ? covale1 F C1 NAG . C NAG 4 1_555 C ND2 ASN 54 C ASN 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? metalc ? metalc1 A OE1 GLU 16 A GLU 16 9_654 D ZN ZN . A ZN 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? metalc ? metalc2 A OE2 GLU 16 A GLU 16 9_654 D ZN ZN . A ZN 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc3 A OD2 ASP 141 A ASP 141 1_555 E ZN ZN . A ZN 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc4 A OD2 ASP 154 A ASP 154 1_555 D ZN ZN . A ZN 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.792 ? metalc ? metalc5 A ND1 HIS 191 A HIS 191 1_555 D ZN ZN . A ZN 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc6 A NE2 HIS 203 A HIS 203 5_564 G ZN ZN . C ZN 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.577 ? metalc ? metalc7 E ZN ZN . A ZN 212 1_555 B NE2 HIS 173 B HIS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc8 G ZN ZN . C ZN 1 1_555 C NE2 HIS 29 C HIS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? metalc ? metalc9 G ZN ZN . C ZN 1 1_555 C OE2 GLU 253 C GLU 280 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc10 G ZN ZN . C ZN 1 1_555 C OE1 GLU 253 C GLU 280 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? # _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 2VIS _atom_sites.fract_transf_matrix[1][1] 0.011696 _atom_sites.fract_transf_matrix[1][2] 0.006753 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013505 _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] 0.001942 _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 D 4 ZN A 1 211 2 ZN ZN . E 4 ZN A 1 212 3 ZN ZN . F 5 NAG C 1 4 4 NAG NAG . G 4 ZN C 1 1 1 ZN ZN . # 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 . . . F 5 2.575 50.389 -150.083 1 37.4 ? C1 NAG 4 C 1 HETATM 2 C C2 NAG . . . F 5 1.937 49.275 -149.323 1 42.48 ? C2 NAG 4 C 1 HETATM 3 C C3 NAG . . . F 5 3.01 48.287 -148.917 1 46.39 ? C3 NAG 4 C 1 HETATM 4 C C4 NAG . . . F 5 3.662 47.71 -150.251 1 45.88 ? C4 NAG 4 C 1 HETATM 5 C C5 NAG . . . F 5 4.091 48.882 -151.204 1 43.47 ? C5 NAG 4 C 1 HETATM 6 C C6 NAG . . . F 5 4.387 48.756 -152.764 1 45.75 ? C6 NAG 4 C 1 HETATM 7 C C7 NAG . . . F 5 -0.124 49.949 -148.108 1 52.77 ? C7 NAG 4 C 1 HETATM 8 C C8 NAG . . . F 5 -0.716 50.327 -146.738 1 53 ? C8 NAG 4 C 1 HETATM 9 N N2 NAG . . . F 5 1.183 49.671 -148.13 1 48.8 ? N2 NAG 4 C 1 HETATM 10 O O3 NAG . . . F 5 2.384 47.3 -148.09 1 53.11 ? O3 NAG 4 C 1 HETATM 11 O O4 NAG . . . F 5 4.777 46.878 -149.963 1 47.09 ? O4 NAG 4 C 1 HETATM 12 O O5 NAG . . . F 5 3.135 49.9 -151.252 1 39.03 ? O5 NAG 4 C 1 HETATM 13 O O6 NAG . . . F 5 5.289 47.761 -153.232 1 55.73 ? O6 NAG 4 C 1 HETATM 14 O O7 NAG . . . F 5 -0.841 49.941 -149.12 1 53.87 ? O7 NAG 4 C 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #