data_7QTV # _model_server_result.job_id KsGVFXE6WVmorzUo622-Gw _model_server_result.datetime_utc '2024-11-04 22:59:19' _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 7qtv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":402}' # _entry.id 7QTV # _exptl.entry_id 7QTV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 10 _entity.src_method syn _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 7QTV _cell.length_a 117.47 _cell.length_b 118.08 _cell.length_c 494.66 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7QTV _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 PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA _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 ? 10 O N N ? 10 P N N ? 10 W N N ? 10 X N 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 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 4 n G NAG 1 F 1 NAG B 401 NAG 4 n G NAG 2 F 2 NAG B 402 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 209 A CYS 204 1_555 A SG CYS 247 A CYS 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 B SG CYS 126 B CYS 126 1_555 B SG CYS 149 B CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 159 B CYS 159 1_555 B SG CYS 175 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 213 B CYS 213 1_555 B SG CYS 276 B CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 D SG CYS 209 C CYS 204 1_555 D SG CYS 247 C CYS 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf6 E SG CYS 126 D CYS 126 1_555 E SG CYS 149 D CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 E SG CYS 159 D CYS 159 1_555 E SG CYS 175 D CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 E SG CYS 213 D CYS 213 1_555 E SG CYS 276 D CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 B ND2 ASN 158 B ASN 158 1_555 G C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 B ND2 ASN 205 B ASN 205 1_555 O C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.37 ? covale ? covale3 B ND2 ASN 265 B ASN 265 1_555 P C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale4 E ND2 ASN 158 D ASN 158 1_555 X C1 NAG . D NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale5 G O4 NAG . F NAG 1 1_555 G C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.371 ? metalc ? metalc1 A OE2 GLU 332 A GLU 327 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc2 A OD1 ASP 374 A ASP 369 1_555 H BE BEF . A BEF 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? metalc ? metalc3 A OD1 ASP 374 A ASP 369 1_555 M MG MG . A MG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.832 ? metalc ? metalc4 A OD2 ASP 374 A ASP 369 1_555 M MG MG . A MG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc5 A O THR 376 A THR 371 1_555 M MG MG . A MG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc6 A OG1 THR 376 A THR 371 1_555 M MG MG . A MG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc7 A OD1 ASP 715 A ASP 710 1_555 M MG MG . A MG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? metalc ? metalc8 A OD1 ASP 745 A ASP 740 1_555 N MG MG . A MG 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc9 A OD2 ASP 745 A ASP 740 1_555 N MG MG . A MG 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc10 A OD1 ASN 781 A ASN 776 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc11 A OE1 GLU 784 A GLU 779 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.885 ? metalc ? metalc12 A OE2 GLU 784 A GLU 779 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc13 A OD1 ASP 809 A ASP 804 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc14 A OD2 ASP 809 A ASP 804 1_555 L MG MG . A MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc15 L MG MG . A MG 1105 1_555 Z O HOH . A HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? metalc ? metalc16 L MG MG . A MG 1105 1_555 Z O HOH . A HOH 1203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc17 L MG MG . A MG 1105 1_555 Z O HOH . A HOH 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc18 N MG MG . A MG 1107 1_555 Z O HOH . A HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? metalc ? metalc19 N MG MG . A MG 1107 1_555 Z O HOH . A HOH 1205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? metalc ? metalc20 D OE1 GLU 332 C GLU 327 1_555 T MG MG . C MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.848 ? metalc ? metalc21 D OD2 ASP 374 C ASP 369 1_555 V MG MG . C MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.761 ? metalc ? metalc22 D O THR 376 C THR 371 1_555 V MG MG . C MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.722 ? metalc ? metalc23 D OD1 ASP 715 C ASP 710 1_555 V MG MG . C MG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.739 ? metalc ? metalc24 D OD1 ASP 745 C ASP 740 1_555 U MG MG . C MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc25 D OD2 ASP 745 C ASP 740 1_555 U MG MG . C MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc26 D OD1 ASN 781 C ASN 776 1_555 T MG MG . C MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc27 D OE1 GLU 784 C GLU 779 1_555 T MG MG . C MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.837 ? metalc ? metalc28 D OD2 ASP 809 C ASP 804 1_555 T MG MG . C MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc29 T MG MG . C MG 1103 1_555 AA O HOH . C HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? metalc ? metalc30 T MG MG . C MG 1103 1_555 AA O HOH . C HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.869 ? metalc ? metalc31 T MG MG . C MG 1103 1_555 AA O HOH . C HOH 1203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc32 U MG MG . C MG 1104 1_555 AA O HOH . C HOH 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? # _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 467 n n C1 O1 NAG sing 468 n n C1 O5 NAG sing 469 n n C1 H1 NAG sing 470 n n C2 C3 NAG sing 471 n n C2 N2 NAG sing 472 n n C2 H2 NAG sing 473 n n C3 C4 NAG sing 474 n n C3 O3 NAG sing 475 n n C3 H3 NAG sing 476 n n C4 C5 NAG sing 477 n n C4 O4 NAG sing 478 n n C4 H4 NAG sing 479 n n C5 C6 NAG sing 480 n n C5 O5 NAG sing 481 n n C5 H5 NAG sing 482 n n C6 O6 NAG sing 483 n n C6 H61 NAG sing 484 n n C6 H62 NAG sing 485 n n C7 C8 NAG sing 486 n n C7 N2 NAG sing 487 n n C7 O7 NAG doub 488 n n C8 H81 NAG sing 489 n n C8 H82 NAG sing 490 n n C8 H83 NAG sing 491 n n N2 HN2 NAG sing 492 n n O1 HO1 NAG sing 493 n n O3 HO3 NAG sing 494 n n O4 HO4 NAG sing 495 n n O6 HO6 NAG sing 496 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 7QTV _atom_sites.fract_transf_matrix[1][1] 0.008513 _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] 0.008469 _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] 0.002022 _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 H 5 BEF A 1 1101 1105 BEF BEF . I 6 1AT A 1 1102 1106 1AT 1AT . J 7 CLR A 1 1103 1107 CLR CLR . K 8 1DS A 1 1104 1108 1DS 1DS . L 9 MG A 1 1105 1 MG MG . M 9 MG A 1 1106 4 MG MG . N 9 MG A 1 1107 5 MG MG . O 10 NAG B 1 401 403 NAG NAG . P 10 NAG B 1 402 404 NAG NAG . Q 7 CLR G 1 101 1102 CLR CLR . R 5 BEF C 1 1101 1102 BEF BEF . S 7 CLR C 1 1102 1106 CLR CLR . T 9 MG C 1 1103 3 MG MG . U 9 MG C 1 1104 6 MG MG . V 9 MG C 1 1105 7 MG MG . W 10 NAG D 1 401 402 NAG NAG . X 10 NAG D 1 402 404 NAG NAG . Y 7 CLR E 1 101 1105 CLR CLR . Z 11 HOH A 1 1201 5 HOH HOH . Z 11 HOH A 2 1202 6 HOH HOH . Z 11 HOH A 3 1203 4 HOH HOH . Z 11 HOH A 4 1204 1104 HOH HOH . Z 11 HOH A 5 1205 9 HOH HOH . AA 11 HOH C 1 1201 1104 HOH HOH . AA 11 HOH C 2 1202 8 HOH HOH . AA 11 HOH C 3 1203 1103 HOH HOH . AA 11 HOH C 4 1204 7 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 . . . X 10 57.473 -84.22 0.412 1 261.17 ? C1 NAG 402 D 1 HETATM 2 C C2 NAG . . . X 10 56.231 -85.091 0.771 1 253.41 ? C2 NAG 402 D 1 HETATM 3 C C3 NAG . . . X 10 56.073 -85.297 2.274 1 255.42 ? C3 NAG 402 D 1 HETATM 4 C C4 NAG . . . X 10 57.369 -85.772 2.903 1 251.82 ? C4 NAG 402 D 1 HETATM 5 C C5 NAG . . . X 10 58.48 -84.789 2.588 1 263.12 ? C5 NAG 402 D 1 HETATM 6 C C6 NAG . . . X 10 59.815 -85.182 3.172 1 259.39 ? C6 NAG 402 D 1 HETATM 7 C C7 NAG . . . X 10 54.611 -84.716 -1.044 1 226.3 ? C7 NAG 402 D 1 HETATM 8 C C8 NAG . . . X 10 53.329 -84.048 -1.43 1 214.65 ? C8 NAG 402 D 1 HETATM 9 N N2 NAG . . . X 10 55.017 -84.516 0.213 1 235.93 ? N2 NAG 402 D 1 HETATM 10 O O1 NAG . . . X 10 57.781 -84.47 -0.919 1 266.18 ? O1 NAG 402 D 1 HETATM 11 O O3 NAG . . . X 10 55.044 -86.253 2.505 1 254.58 ? O3 NAG 402 D 1 HETATM 12 O O4 NAG . . . X 10 57.199 -85.876 4.311 1 231.51 ? O4 NAG 402 D 1 HETATM 13 O O5 NAG . . . X 10 58.655 -84.663 1.169 1 263.03 ? O5 NAG 402 D 1 HETATM 14 O O6 NAG . . . X 10 60.608 -84.035 3.45 1 263.37 ? O6 NAG 402 D 1 HETATM 15 O O7 NAG . . . X 10 55.256 -85.393 -1.838 1 229.99 ? O7 NAG 402 D 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #