data_4KRL # _model_server_result.job_id mX4uM7kwHkZTPSBr4V2luA _model_server_result.datetime_utc '2024-11-19 17:42:41' _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 4krl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":604}' # _entry.id 4KRL # _exptl.entry_id 4KRL _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 2 _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 4KRL _cell.length_a 148.048 _cell.length_b 148.048 _cell.length_c 82.51 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KRL _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,H,I,J _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 ? 5 E N N ? 5 F 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 C NAG 1 C 1 NAG A 3281 NAG 3 n C NAG 2 C 2 NAG A 3282 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 22 B CYS 22 1_555 A SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 B SG CYS 7 A CYS 313 1_555 B SG CYS 32 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf3 B SG CYS 140 A CYS 446 1_555 B SG CYS 169 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 B SG CYS 176 A CYS 482 1_555 B SG CYS 185 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 B SG CYS 180 A CYS 486 1_555 B SG CYS 193 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 196 A CYS 502 1_555 B SG CYS 205 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 B ND2 ASN 22 A ASN 328 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 B ND2 ASN 31 A ASN 337 1_555 E C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 B ND2 ASN 114 A ASN 420 1_555 F C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? # _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 262 n n C1 O1 NAG sing 263 n n C1 O5 NAG sing 264 n n C1 H1 NAG sing 265 n n C2 C3 NAG sing 266 n n C2 N2 NAG sing 267 n n C2 H2 NAG sing 268 n n C3 C4 NAG sing 269 n n C3 O3 NAG sing 270 n n C3 H3 NAG sing 271 n n C4 C5 NAG sing 272 n n C4 O4 NAG sing 273 n n C4 H4 NAG sing 274 n n C5 C6 NAG sing 275 n n C5 O5 NAG sing 276 n n C5 H5 NAG sing 277 n n C6 O6 NAG sing 278 n n C6 H61 NAG sing 279 n n C6 H62 NAG sing 280 n n C7 C8 NAG sing 281 n n C7 N2 NAG sing 282 n n C7 O7 NAG doub 283 n n C8 H81 NAG sing 284 n n C8 H82 NAG sing 285 n n C8 H83 NAG sing 286 n n N2 HN2 NAG sing 287 n n O1 HO1 NAG sing 288 n n O3 HO3 NAG sing 289 n n O4 HO4 NAG sing 290 n n O6 HO6 NAG sing 291 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 4KRL _atom_sites.fract_transf_matrix[1][1] 0.006755 _atom_sites.fract_transf_matrix[1][2] 0.0039 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0078 _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] 0.01212 _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 MES B 1 201 1 MES MES . E 5 NAG A 1 603 3371 NAG NAG . F 5 NAG A 1 604 4201 NAG NAG . G 6 IOD A 1 605 1 IOD IOD . H 4 MES A 1 606 2 MES MES . I 7 HOH B 1 301 2 HOH HOH . I 7 HOH B 2 302 6 HOH HOH . I 7 HOH B 3 303 9 HOH HOH . I 7 HOH B 4 304 10 HOH HOH . I 7 HOH B 5 305 11 HOH HOH . I 7 HOH B 6 306 12 HOH HOH . I 7 HOH B 7 307 19 HOH HOH . I 7 HOH B 8 308 20 HOH HOH . I 7 HOH B 9 309 21 HOH HOH . I 7 HOH B 10 310 23 HOH HOH . I 7 HOH B 11 311 26 HOH HOH . I 7 HOH B 12 312 29 HOH HOH . I 7 HOH B 13 313 30 HOH HOH . I 7 HOH B 14 314 36 HOH HOH . J 7 HOH A 1 701 1 HOH HOH . J 7 HOH A 2 702 3 HOH HOH . J 7 HOH A 3 703 4 HOH HOH . J 7 HOH A 4 704 5 HOH HOH . J 7 HOH A 5 705 7 HOH HOH . J 7 HOH A 6 706 8 HOH HOH . J 7 HOH A 7 707 13 HOH HOH . J 7 HOH A 8 708 14 HOH HOH . J 7 HOH A 9 709 15 HOH HOH . J 7 HOH A 10 710 16 HOH HOH . J 7 HOH A 11 711 17 HOH HOH . J 7 HOH A 12 712 18 HOH HOH . J 7 HOH A 13 713 22 HOH HOH . J 7 HOH A 14 714 24 HOH HOH . J 7 HOH A 15 715 25 HOH HOH . J 7 HOH A 16 716 27 HOH HOH . J 7 HOH A 17 717 28 HOH HOH . J 7 HOH A 18 718 31 HOH HOH . J 7 HOH A 19 719 32 HOH HOH . J 7 HOH A 20 720 33 HOH HOH . J 7 HOH A 21 721 34 HOH HOH . J 7 HOH A 22 722 35 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 . . . F 5 0.64 -54.661 -7.751 1 60.23 ? C1 NAG 604 A 1 HETATM 2 C C2 NAG . . . F 5 0.119 -53.223 -7.779 1 67.09 ? C2 NAG 604 A 1 HETATM 3 C C3 NAG . . . F 5 -1.377 -53.195 -7.458 1 68.12 ? C3 NAG 604 A 1 HETATM 4 C C4 NAG . . . F 5 -2.141 -54.156 -8.359 1 64.11 ? C4 NAG 604 A 1 HETATM 5 C C5 NAG . . . F 5 -1.521 -55.549 -8.288 1 70.85 ? C5 NAG 604 A 1 HETATM 6 C C6 NAG . . . F 5 -2.161 -56.531 -9.242 1 68.07 ? C6 NAG 604 A 1 HETATM 7 C C7 NAG . . . F 5 0.981 -51.063 -6.984 1 73.11 ? C7 NAG 604 A 1 HETATM 8 C C8 NAG . . . F 5 1.776 -50.363 -5.923 1 45.87 ? C8 NAG 604 A 1 HETATM 9 N N2 NAG . . . F 5 0.856 -52.388 -6.846 1 69.73 ? N2 NAG 604 A 1 HETATM 10 O O3 NAG . . . F 5 -1.883 -51.876 -7.629 1 70.87 ? O3 NAG 604 A 1 HETATM 11 O O4 NAG . . . F 5 -3.506 -54.218 -7.961 1 59.83 ? O4 NAG 604 A 1 HETATM 12 O O5 NAG . . . F 5 -0.132 -55.474 -8.641 1 67.07 ? O5 NAG 604 A 1 HETATM 13 O O6 NAG . . . F 5 -1.954 -57.876 -8.83 1 63.53 ? O6 NAG 604 A 1 HETATM 14 O O7 NAG . . . F 5 0.472 -50.457 -7.922 1 92.94 ? O7 NAG 604 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #