data_7EKC # _model_server_result.job_id UPLQ-wLi_FO_7L5lCs6zCg _model_server_result.datetime_utc '2024-11-01 18:33:52' _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 7ekc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":705}' # _entry.id 7EKC # _exptl.entry_id 7EKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 5 _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 7EKC _cell.length_a 103.354 _cell.length_b 103.354 _cell.length_c 229.784 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EKC _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 D N N ? 4 E N N ? 4 G N N ? 4 H N N ? 4 I 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 702 NAG 3 n C NAG 2 C 2 NAG A 801 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 18 B CYS 336 1_555 B SG CYS 43 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 61 B CYS 379 1_555 B SG CYS 114 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 73 B CYS 391 1_555 B SG CYS 207 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 162 B CYS 480 1_555 B SG CYS 170 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? covale ? covale1 A ND2 ASN 35 A ASN 53 1_555 D C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 72 A ASN 90 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 304 A ASN 322 1_555 E C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 414 A ASN 432 1_555 G C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 A ND2 ASN 528 A ASN 546 1_555 H C1 NAG . A NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 B ND2 ASN 25 B ASN 343 1_555 I C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? metalc ? metalc1 A NE2 HIS 356 A HIS 374 1_555 F ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc2 A NE2 HIS 360 A HIS 378 1_555 F ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 A OE1 GLU 384 A GLU 402 1_555 F ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc4 A OE2 GLU 384 A GLU 402 1_555 F ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc5 F ZN ZN . A ZN 703 1_555 J O HOH . A HOH 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? # _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 7EKC _atom_sites.fract_transf_matrix[1][1] 0.009675 _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] 0.009675 _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] 0.004352 _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 NAG A 1 701 701 NAG NAG . E 4 NAG A 1 702 703 NAG NAG . F 5 ZN A 1 703 704 ZN ZN . G 4 NAG A 1 704 901 NAG NAG . H 4 NAG A 1 705 1001 NAG NAG . I 4 NAG B 1 601 601 NAG NAG . J 6 HOH A 1 801 20 HOH HOH . J 6 HOH A 2 802 10 HOH HOH . J 6 HOH A 3 803 18 HOH HOH . J 6 HOH A 4 804 57 HOH HOH . J 6 HOH A 5 805 28 HOH HOH . J 6 HOH A 6 806 46 HOH HOH . J 6 HOH A 7 807 24 HOH HOH . J 6 HOH A 8 808 64 HOH HOH . J 6 HOH A 9 809 54 HOH HOH . J 6 HOH A 10 810 1 HOH HOH . J 6 HOH A 11 811 48 HOH HOH . J 6 HOH A 12 812 3 HOH HOH . J 6 HOH A 13 813 13 HOH HOH . J 6 HOH A 14 814 53 HOH HOH . J 6 HOH A 15 815 19 HOH HOH . J 6 HOH A 16 816 29 HOH HOH . J 6 HOH A 17 817 55 HOH HOH . J 6 HOH A 18 818 25 HOH HOH . J 6 HOH A 19 819 52 HOH HOH . J 6 HOH A 20 820 6 HOH HOH . J 6 HOH A 21 821 38 HOH HOH . J 6 HOH A 22 822 58 HOH HOH . J 6 HOH A 23 823 45 HOH HOH . J 6 HOH A 24 824 65 HOH HOH . J 6 HOH A 25 825 40 HOH HOH . J 6 HOH A 26 826 12 HOH HOH . J 6 HOH A 27 827 39 HOH HOH . J 6 HOH A 28 828 26 HOH HOH . J 6 HOH A 29 829 23 HOH HOH . J 6 HOH A 30 830 41 HOH HOH . J 6 HOH A 31 831 68 HOH HOH . J 6 HOH A 32 832 27 HOH HOH . J 6 HOH A 33 833 9 HOH HOH . J 6 HOH A 34 834 50 HOH HOH . J 6 HOH A 35 835 35 HOH HOH . J 6 HOH A 36 836 67 HOH HOH . J 6 HOH A 37 837 62 HOH HOH . J 6 HOH A 38 838 63 HOH HOH . J 6 HOH A 39 839 21 HOH HOH . J 6 HOH A 40 840 51 HOH HOH . J 6 HOH A 41 841 5 HOH HOH . J 6 HOH A 42 842 36 HOH HOH . J 6 HOH A 43 843 31 HOH HOH . J 6 HOH A 44 844 70 HOH HOH . J 6 HOH A 45 845 72 HOH HOH . J 6 HOH A 46 846 59 HOH HOH . K 6 HOH B 1 701 66 HOH HOH . K 6 HOH B 2 702 30 HOH HOH . K 6 HOH B 3 703 14 HOH HOH . K 6 HOH B 4 704 69 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 . . . H 4 -4.864 0.158 -6.347 1 101.45 ? C1 NAG 705 A 1 HETATM 2 C C2 NAG . . . H 4 -4.879 -0.976 -7.372 1 103 ? C2 NAG 705 A 1 HETATM 3 C C3 NAG . . . H 4 -5.396 -2.264 -6.729 1 104.6 ? C3 NAG 705 A 1 HETATM 4 C C4 NAG . . . H 4 -4.655 -2.57 -5.432 1 109.7 ? C4 NAG 705 A 1 HETATM 5 C C5 NAG . . . H 4 -4.629 -1.35 -4.516 1 108.44 ? C5 NAG 705 A 1 HETATM 6 C C6 NAG . . . H 4 -3.762 -1.545 -3.293 1 108.83 ? C6 NAG 705 A 1 HETATM 7 C C7 NAG . . . H 4 -5.189 -0.309 -9.721 1 98.63 ? C7 NAG 705 A 1 HETATM 8 C C8 NAG . . . H 4 -6.186 0.043 -10.783 1 94 ? C8 NAG 705 A 1 HETATM 9 N N2 NAG . . . H 4 -5.695 -0.618 -8.521 1 99.83 ? N2 NAG 705 A 1 HETATM 10 O O3 NAG . . . H 4 -5.231 -3.346 -7.639 1 101.37 ? O3 NAG 705 A 1 HETATM 11 O O4 NAG . . . H 4 -5.306 -3.635 -4.748 1 106.44 ? O4 NAG 705 A 1 HETATM 12 O O5 NAG . . . H 4 -4.089 -0.226 -5.222 1 109.21 ? O5 NAG 705 A 1 HETATM 13 O O6 NAG . . . H 4 -2.382 -1.454 -3.618 1 107.72 ? O6 NAG 705 A 1 HETATM 14 O O7 NAG . . . H 4 -3.981 -0.31 -9.937 1 100.03 ? O7 NAG 705 A 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #