data_5CMN # _model_server_result.job_id UjFuOnbpGBIMrvaFzAfxIw _model_server_result.datetime_utc '2024-11-24 22:01:30' _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 5cmn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":901}' # _entry.id 5CMN # _exptl.entry_id 5CMN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 5CMN _cell.length_a 102.268 _cell.length_b 102.268 _cell.length_c 419.23 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CMN _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 ? dimeric 2 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I,M 1 1 B,F,J,N 2 1 C,G,K,O 3 1 D,H,L,P 4 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 ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N 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 7 A CYS 31 1_555 A SG CYS 13 A CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 11 A CYS 35 1_555 A SG CYS 20 A CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 285 A CYS 309 1_555 A SG CYS 310 A CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 7 B CYS 31 1_555 B SG CYS 13 B CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 B SG CYS 11 B CYS 35 1_555 B SG CYS 20 B CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 B SG CYS 285 B CYS 309 1_555 B SG CYS 310 B CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 C SG CYS 7 C CYS 31 1_555 C SG CYS 13 C CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 C SG CYS 11 C CYS 35 1_555 C SG CYS 20 C CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf9 C SG CYS 285 C CYS 309 1_555 C SG CYS 310 C CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 D SG CYS 7 D CYS 31 1_555 D SG CYS 13 D CYS 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 D SG CYS 11 D CYS 35 1_555 D SG CYS 20 D CYS 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf12 D SG CYS 285 D CYS 309 1_555 D SG CYS 310 D CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 E SG CYS 4 E CYS 135 1_555 E SG CYS 186 E CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 F SG CYS 4 F CYS 135 1_555 F SG CYS 186 F CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf15 G SG CYS 4 G CYS 135 1_555 G SG CYS 186 G CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf16 H SG CYS 4 H CYS 135 1_555 H SG CYS 186 H CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 202 A ASN 226 1_555 I C1 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 B ND2 ASN 202 B ASN 226 1_555 J C1 NAG . B NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale3 C ND2 ASN 202 C ASN 226 1_555 K C1 NAG . C NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 D ND2 ASN 202 D ASN 226 1_555 L C1 NAG . D NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 E OD1 ASP 133 E ASP 264 1_555 M CA CA . E CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc2 E OD2 ASP 133 E ASP 264 1_555 M CA CA . E CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc3 E OD1 ASN 181 E ASN 312 1_555 M CA CA . E CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc4 E O ALA 182 E ALA 313 1_555 M CA CA . E CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc5 E O VAL 236 E VAL 367 1_555 M CA CA . E CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc6 F OD1 ASP 133 F ASP 264 1_555 N CA CA . F CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc7 F OD2 ASP 133 F ASP 264 1_555 N CA CA . F CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc8 F OD1 ASN 181 F ASN 312 1_555 N CA CA . F CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc9 F O ALA 182 F ALA 313 1_555 N CA CA . F CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc10 F O VAL 236 F VAL 367 1_555 N CA CA . F CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc11 G OD1 ASP 133 G ASP 264 1_555 O CA CA . G CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc12 G OD2 ASP 133 G ASP 264 1_555 O CA CA . G CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc13 G OD1 ASN 181 G ASN 312 1_555 O CA CA . G CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc14 G O ALA 182 G ALA 313 1_555 O CA CA . G CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc15 G O VAL 236 G VAL 367 1_555 O CA CA . G CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc16 H OD1 ASP 133 H ASP 264 1_555 P CA CA . H CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc17 H OD2 ASP 133 H ASP 264 1_555 P CA CA . H CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc18 H OD1 ASN 181 H ASN 312 1_555 P CA CA . H CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc19 H O ALA 182 H ALA 313 1_555 P CA CA . H CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc20 H O VAL 236 H VAL 367 1_555 P CA CA . H CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? # _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 5CMN _atom_sites.fract_transf_matrix[1][1] 0.009778 _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] 0.009778 _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] 0.002385 _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 I 3 NAG A 1 901 901 NAG NAG . J 3 NAG B 1 901 901 NAG NAG . K 3 NAG C 1 901 901 NAG NAG . L 3 NAG D 1 901 901 NAG NAG . M 4 CA E 1 401 1461 CA CA . N 4 CA F 1 401 1461 CA CA . O 4 CA G 1 401 1461 CA CA . P 4 CA H 1 401 1461 CA CA . # 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 . . . I 3 79.964 60.858 51.168 1 146.65 ? C1 NAG 901 A 1 HETATM 2 C C2 NAG . . . I 3 79.65 61.756 52.383 1 145.65 ? C2 NAG 901 A 1 HETATM 3 C C3 NAG . . . I 3 79.825 60.99 53.701 1 143.21 ? C3 NAG 901 A 1 HETATM 4 C C4 NAG . . . I 3 79.092 59.656 53.665 1 141.56 ? C4 NAG 901 A 1 HETATM 5 C C5 NAG . . . I 3 79.533 58.868 52.441 1 141.24 ? C5 NAG 901 A 1 HETATM 6 C C6 NAG . . . I 3 78.836 57.534 52.305 1 137.92 ? C6 NAG 901 A 1 HETATM 7 C C7 NAG . . . I 3 81.805 62.971 52.5 1 141.76 ? C7 NAG 901 A 1 HETATM 8 C C8 NAG . . . I 3 82.453 64.323 52.492 1 139.35 ? C8 NAG 901 A 1 HETATM 9 N N2 NAG . . . I 3 80.468 62.962 52.382 1 145.03 ? N2 NAG 901 A 1 HETATM 10 O O3 NAG . . . I 3 79.334 61.786 54.774 1 142.92 ? O3 NAG 901 A 1 HETATM 11 O O4 NAG . . . I 3 79.384 58.905 54.839 1 137.6 ? O4 NAG 901 A 1 HETATM 12 O O5 NAG . . . I 3 79.223 59.628 51.266 1 145.19 ? O5 NAG 901 A 1 HETATM 13 O O6 NAG . . . I 3 79.476 56.537 53.089 1 135.16 ? O6 NAG 901 A 1 HETATM 14 O O7 NAG . . . I 3 82.464 61.939 52.604 1 139.95 ? O7 NAG 901 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 58 _model_server_stats.query_time_ms 732 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #