data_4M40 # _model_server_result.job_id 42pzCDzblEeD84TbNBssrg _model_server_result.datetime_utc '2024-10-28 14:24:08' _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 4m40 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":403}' # _entry.id 4M40 # _exptl.entry_id 4M40 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 12 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 115.18 _cell.angle_gamma 90 _cell.entry_id 4M40 _cell.length_a 174.912 _cell.length_b 101.294 _cell.length_c 136.81 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4M40 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 S N N ? 4 T N N ? 4 U N N ? 4 V N N ? 4 W N N ? 4 X N N ? 4 Y N N ? 4 Z N N ? 4 AA 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 G NAG 1 G 1 NAG A 1343 NAG 3 n G NAG 2 G 2 NAG A 1344 NAG 3 n H NAG 1 H 1 NAG A 1349 NAG 3 n H NAG 2 H 2 NAG A 1350 NAG 3 n I NAG 1 I 1 NAG A 1351 NAG 3 n I NAG 2 I 2 NAG A 1352 NAG 3 n J NAG 1 J 1 NAG C 1343 NAG 3 n J NAG 2 J 2 NAG C 1344 NAG 3 n K NAG 1 K 1 NAG C 1349 NAG 3 n K NAG 2 K 2 NAG C 1350 NAG 3 n L NAG 1 L 1 NAG C 1351 NAG 3 n L NAG 2 L 2 NAG C 1352 NAG 3 n M NAG 1 M 1 NAG E 1343 NAG 3 n M NAG 2 M 2 NAG E 1344 NAG 3 n N NAG 1 N 1 NAG E 1349 NAG 3 n N NAG 2 N 2 NAG E 1350 NAG 3 n O NAG 1 O 1 NAG E 1351 NAG 3 n O NAG 2 O 2 NAG E 1352 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 4 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 54 A CYS 54 1_555 A SG CYS 57 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? disulf ? disulf3 A SG CYS 60 A CYS 60 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 A SG CYS 94 A CYS 94 1_555 A SG CYS 143 A CYS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? disulf ? disulf5 A SG CYS 180 A CYS 178 1_555 A SG CYS 274 A CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 294 A CYS 292 1_555 A SG CYS 320 A CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? disulf ? disulf8 C SG CYS 4 C CYS 4 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 C SG CYS 54 C CYS 54 1_555 C SG CYS 57 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.852 ? disulf ? disulf10 C SG CYS 60 C CYS 60 1_555 C SG CYS 72 C CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? disulf ? disulf11 C SG CYS 94 C CYS 94 1_555 C SG CYS 143 C CYS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? disulf ? disulf12 C SG CYS 180 C CYS 178 1_555 C SG CYS 274 C CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 C SG CYS 294 C CYS 292 1_555 C SG CYS 320 C CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? disulf ? disulf15 E SG CYS 4 E CYS 4 1_555 F SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf16 E SG CYS 54 E CYS 54 1_555 E SG CYS 57 E CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.86 ? disulf ? disulf17 E SG CYS 60 E CYS 60 1_555 E SG CYS 72 E CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? disulf ? disulf18 E SG CYS 94 E CYS 94 1_555 E SG CYS 143 E CYS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? disulf ? disulf19 E SG CYS 180 E CYS 178 1_555 E SG CYS 274 E CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf20 E SG CYS 294 E CYS 292 1_555 E SG CYS 320 E CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf21 F SG CYS 144 F CYS 144 1_555 F SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? covale ? covale1 A ND2 ASN 25 A ASN 25 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 A ND2 ASN 59 A ASN 59 1_555 R C1 NAG . A NAG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 A CB CYS 60 A CYS 60 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? covale ? covale4 A ND2 ASN 145 A ASN 145 1_555 P C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 A ND2 ASN 165 A ASN 163 1_555 Q C1 NAG . A NAG 406 1_555 B ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale6 A ND2 ASN 303 A ASN 301 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale7 A ND2 ASN 332 A ASN 330 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale8 B ND2 ASN 145 B ASN 145 1_555 S C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale9 C ND2 ASN 25 C ASN 25 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale10 C ND2 ASN 59 C ASN 59 1_555 V C1 NAG . C NAG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale11 C ND2 ASN 145 C ASN 145 1_555 T C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale12 C ND2 ASN 165 C ASN 163 1_555 U C1 NAG . C NAG 404 1_555 B ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale13 C ND2 ASN 303 C ASN 301 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale14 C ND2 ASN 332 C ASN 330 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale15 D ND2 ASN 145 D ASN 145 1_555 W C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale16 E ND2 ASN 25 E ASN 25 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale17 E ND2 ASN 59 E ASN 59 1_555 Z C1 NAG . E NAG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale18 E CB CYS 60 E CYS 60 1_555 E SG CYS 72 E CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? covale ? covale19 E ND2 ASN 145 E ASN 145 1_555 X C1 NAG . E NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale20 E ND2 ASN 165 E ASN 163 1_555 Y C1 NAG . E NAG 404 1_555 B ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale21 E ND2 ASN 303 E ASN 301 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale22 E ND2 ASN 332 E ASN 330 1_555 O C1 NAG . O NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale23 F ND2 ASN 145 F ASN 145 1_555 AA C1 NAG . F NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale24 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale25 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale26 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale27 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale28 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale29 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale30 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale31 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale32 O O4 NAG . O NAG 1 1_555 O C1 NAG . O NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _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 ? # 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 4M40 _atom_sites.fract_transf_matrix[1][1] 0.005717 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002688 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009872 _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] 0.008077 _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 P 4 NAG A 1 403 1347 NAG NAG . Q 4 NAG A 1 406 1348 NAG NAG . R 4 NAG A 1 409 1411 NAG NAG . S 4 NAG B 1 201 1170 NAG NAG . T 4 NAG C 1 403 1347 NAG NAG . U 4 NAG C 1 404 1348 NAG NAG . V 4 NAG C 1 409 1411 NAG NAG . W 4 NAG D 1 201 1170 NAG NAG . X 4 NAG E 1 403 1347 NAG NAG . Y 4 NAG E 1 404 1348 NAG NAG . Z 4 NAG E 1 409 1411 NAG NAG . AA 4 NAG F 1 201 1170 NAG NAG . # 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 . . . P 4 57.259 78.502 17.029 1 70.59 ? C1 NAG 403 A 1 HETATM 2 C C2 NAG . . . P 4 58.293 77.738 17.857 1 74.11 ? C2 NAG 403 A 1 HETATM 3 C C3 NAG . . . P 4 59.174 76.88 16.962 1 71.81 ? C3 NAG 403 A 1 HETATM 4 C C4 NAG . . . P 4 58.307 75.948 16.132 1 75.16 ? C4 NAG 403 A 1 HETATM 5 C C5 NAG . . . P 4 57.304 76.764 15.321 1 69.18 ? C5 NAG 403 A 1 HETATM 6 C C6 NAG . . . P 4 56.347 75.892 14.539 1 72.98 ? C6 NAG 403 A 1 HETATM 7 C C7 NAG . . . P 4 58.91 78.816 19.979 1 76.22 ? C7 NAG 403 A 1 HETATM 8 C C8 NAG . . . P 4 59.833 79.786 20.655 1 76.81 ? C8 NAG 403 A 1 HETATM 9 N N2 NAG . . . P 4 59.099 78.642 18.664 1 78.12 ? N2 NAG 403 A 1 HETATM 10 O O3 NAG . . . P 4 60.045 76.11 17.781 1 73.93 ? O3 NAG 403 A 1 HETATM 11 O O4 NAG . . . P 4 59.115 75.144 15.279 1 74.6 ? O4 NAG 403 A 1 HETATM 12 O O5 NAG . . . P 4 56.506 77.574 16.205 1 68.63 ? O5 NAG 403 A 1 HETATM 13 O O6 NAG . . . P 4 55.767 76.589 13.445 1 71.49 ? O6 NAG 403 A 1 HETATM 14 O O7 NAG . . . P 4 58.027 78.221 20.594 1 78.8 ? O7 NAG 403 A 1 # _model_server_stats.io_time_ms 89 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #