data_4XP6 # _model_server_result.job_id xasiwjknmYSz4kFsb0bgRw _model_server_result.datetime_utc '2025-02-17 16:49:26' _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 4xp6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":606}' # _entry.id 4XP6 # _exptl.entry_id 4XP6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _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 90 _cell.entry_id 4XP6 _cell.length_a 97.04 _cell.length_b 141.37 _cell.length_c 165.68 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XP6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,H,I,J,K,L,M,N _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 8 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 GLC _pdbx_entity_branch_link.comp_id_2 GLC _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 4 n D GLC 1 B 1 GLC X 1 MAL 4 n D GLC 2 B 2 GLC X 1 MAL # 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 124 A CYS 148 1_555 A SG CYS 133 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 B SG CYS 23 L CYS 23 1_555 B SG CYS 89 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 B SG CYS 135 L CYS 135 1_555 B SG CYS 195 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 C SG CYS 146 H CYS 146 1_555 C SG CYS 201 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 117 A ASN 141 1_555 I C1 NAG . A NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale2 D O4 GLC . B GLC 1 1_555 D C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 sing metalc ? metalc1 A O GLY 18 A GLY 42 1_555 G NA NA . A NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc2 A O ALA 20 A ALA 44 1_555 F NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc3 A O VAL 21 A VAL 45 1_555 G NA NA . A NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc4 A OD1 ASN 25 A ASN 49 1_555 F NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc5 A O SER 255 A SER 320 1_555 F NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc6 A OG SER 255 A SER 320 1_555 F NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc7 A OD1 ASN 287 A ASN 352 1_555 F NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? metalc ? metalc8 A O LEU 352 A LEU 417 1_555 G NA NA . A NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc9 A OD1 ASP 355 A ASP 420 1_555 G NA NA . A NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc10 A OG SER 356 A SER 421 1_555 G NA NA . A NA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc11 F NA NA . A NA 603 1_555 L O HOH . A HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.881 ? # _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 364 n n C1 O1 NAG sing 365 n n C1 O5 NAG sing 366 n n C1 H1 NAG sing 367 n n C2 C3 NAG sing 368 n n C2 N2 NAG sing 369 n n C2 H2 NAG sing 370 n n C3 C4 NAG sing 371 n n C3 O3 NAG sing 372 n n C3 H3 NAG sing 373 n n C4 C5 NAG sing 374 n n C4 O4 NAG sing 375 n n C4 H4 NAG sing 376 n n C5 C6 NAG sing 377 n n C5 O5 NAG sing 378 n n C5 H5 NAG sing 379 n n C6 O6 NAG sing 380 n n C6 H61 NAG sing 381 n n C6 H62 NAG sing 382 n n C7 C8 NAG sing 383 n n C7 N2 NAG sing 384 n n C7 O7 NAG doub 385 n n C8 H81 NAG sing 386 n n C8 H82 NAG sing 387 n n C8 H83 NAG sing 388 n n N2 HN2 NAG sing 389 n n O1 HO1 NAG sing 390 n n O3 HO3 NAG sing 391 n n O4 HO4 NAG sing 392 n n O6 HO6 NAG sing 393 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 4XP6 _atom_sites.fract_transf_matrix[1][1] 0.010305 _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] 0.007074 _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] 0.006036 _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 E 5 B40 A 1 601 1 B40 B40 . F 6 NA A 1 603 1 NA NA . G 6 NA A 1 604 2 NA NA . H 7 CL A 1 605 1 CL CL . I 8 NAG A 1 606 1 NAG NAG . J 9 CLR A 1 607 1 CLR CLR . K 10 Y01 A 1 608 1 Y01 CHS . L 11 HOH A 1 701 18 HOH HOH . L 11 HOH A 2 702 16 HOH HOH . L 11 HOH A 3 703 1 HOH HOH . L 11 HOH A 4 704 17 HOH HOH . L 11 HOH A 5 705 15 HOH HOH . L 11 HOH A 6 706 19 HOH HOH . L 11 HOH A 7 707 2 HOH HOH . L 11 HOH A 8 708 14 HOH HOH . L 11 HOH A 9 709 7 HOH HOH . L 11 HOH A 10 710 3 HOH HOH . L 11 HOH A 11 711 5 HOH HOH . L 11 HOH A 12 712 13 HOH HOH . M 11 HOH L 1 301 20 HOH HOH . M 11 HOH L 2 302 6 HOH HOH . M 11 HOH L 3 303 10 HOH HOH . M 11 HOH L 4 304 4 HOH HOH . M 11 HOH L 5 305 22 HOH HOH . N 11 HOH H 1 301 8 HOH HOH . N 11 HOH H 2 302 9 HOH HOH . N 11 HOH H 3 303 11 HOH HOH . N 11 HOH H 4 304 21 HOH HOH . N 11 HOH H 5 305 12 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 . . . I 8 -132.043 -144.838 164.869 1 130.46 ? C1 NAG 606 A 1 HETATM 2 C C2 NAG . . . I 8 -132.659 -144.538 163.51 1 125.34 ? C2 NAG 606 A 1 HETATM 3 C C3 NAG . . . I 8 -133.932 -145.372 163.35 1 124.26 ? C3 NAG 606 A 1 HETATM 4 C C4 NAG . . . I 8 -133.673 -146.84 163.681 1 125.96 ? C4 NAG 606 A 1 HETATM 5 C C5 NAG . . . I 8 -132.899 -146.98 164.994 1 128.28 ? C5 NAG 606 A 1 HETATM 6 C C6 NAG . . . I 8 -132.465 -148.396 165.297 1 123.6 ? C6 NAG 606 A 1 HETATM 7 C C7 NAG . . . I 8 -132.875 -142.427 162.229 1 130.54 ? C7 NAG 606 A 1 HETATM 8 C C8 NAG . . . I 8 -132.414 -143.185 161.015 1 124.38 ? C8 NAG 606 A 1 HETATM 9 N N2 NAG . . . I 8 -132.963 -143.117 163.376 1 125.33 ? N2 NAG 606 A 1 HETATM 10 O O3 NAG . . . I 8 -134.451 -145.244 162.033 1 119.26 ? O3 NAG 606 A 1 HETATM 11 O O4 NAG . . . I 8 -134.91 -147.534 163.805 1 119 ? O4 NAG 606 A 1 HETATM 12 O O5 NAG . . . I 8 -131.708 -146.186 164.937 1 132.03 ? O5 NAG 606 A 1 HETATM 13 O O6 NAG . . . I 8 -133.567 -149.227 165.63 1 120.99 ? O6 NAG 606 A 1 HETATM 14 O O7 NAG . . . I 8 -133.158 -141.233 162.173 1 135.52 ? O7 NAG 606 A 1 HETATM 15 H H1 NAG . . . I 8 -132.691 -144.631 165.569 1 156.55 ? H1 NAG 606 A 1 HETATM 16 H H2 NAG . . . I 8 -132.027 -144.798 162.813 1 150.41 ? H2 NAG 606 A 1 HETATM 17 H H3 NAG . . . I 8 -134.6 -145.031 163.976 1 149.11 ? H3 NAG 606 A 1 HETATM 18 H H4 NAG . . . I 8 -133.152 -147.243 162.96 1 151.15 ? H4 NAG 606 A 1 HETATM 19 H H5 NAG . . . I 8 -133.46 -146.659 165.726 1 153.94 ? H5 NAG 606 A 1 HETATM 20 H H61 NAG . . . I 8 -131.84 -148.383 166.046 1 148.33 ? H61 NAG 606 A 1 HETATM 21 H H62 NAG . . . I 8 -132.015 -148.764 164.513 1 148.33 ? H62 NAG 606 A 1 HETATM 22 H H81 NAG . . . I 8 -132.427 -142.594 160.238 1 149.26 ? H81 NAG 606 A 1 HETATM 23 H H82 NAG . . . I 8 -133.01 -143.942 160.858 1 149.26 ? H82 NAG 606 A 1 HETATM 24 H H83 NAG . . . I 8 -131.505 -143.511 161.16 1 149.26 ? H83 NAG 606 A 1 HETATM 25 H HN2 NAG . . . I 8 -133.247 -142.672 164.12 1 150.39 ? HN2 NAG 606 A 1 HETATM 26 H HO3 NAG . . . I 8 -135.338 -145.199 162.067 1 143.11 ? HO3 NAG 606 A 1 HETATM 27 H HO4 NAG . . . I 8 -135.069 -147.991 163.06 1 142.8 ? HO4 NAG 606 A 1 HETATM 28 H HO6 NAG . . . I 8 -133.356 -149.734 166.327 1 145.19 ? HO6 NAG 606 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 28 #