data_3NWF # _model_server_result.job_id vb_fWoY_D0KfwqQGsQbTfw _model_server_result.datetime_utc '2025-01-10 14:46:16' _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 3nwf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":751}' # _entry.id 3NWF # _exptl.entry_id 3NWF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 120 _cell.entry_id 3NWF _cell.length_a 117.802 _cell.length_b 117.802 _cell.length_c 318.324 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NWF _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 PISA trimeric 3 author_and_software_defined_assembly 3 PISA trimeric 3 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,H,I,P 1 1,2,3 B,J,K,Q 2 1,4,5 C,L,M,N,R 3 1,2,3 D,O,S 4 1,4,5 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 58.901 -102.019525 0 5 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 117.802 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 89 A CYS 116 1_555 A SG CYS 546 A CYS 573 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 106 A CYS 133 1_555 A SG CYS 502 A CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 180 A CYS 207 1_555 A SG CYS 244 A CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 A SG CYS 337 A CYS 364 1_555 A SG CYS 385 A CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 A SG CYS 569 A CYS 596 1_555 A SG CYS 606 A CYS 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 89 B CYS 116 1_555 B SG CYS 546 B CYS 573 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 B SG CYS 106 B CYS 133 1_555 B SG CYS 502 B CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf8 B SG CYS 180 B CYS 207 1_555 B SG CYS 244 B CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 B SG CYS 337 B CYS 364 1_555 B SG CYS 385 B CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 B SG CYS 569 B CYS 596 1_555 B SG CYS 606 B CYS 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 C SG CYS 89 C CYS 116 1_555 C SG CYS 546 C CYS 573 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 C SG CYS 106 C CYS 133 1_555 C SG CYS 502 C CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf13 C SG CYS 180 C CYS 207 1_555 C SG CYS 244 C CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf14 C SG CYS 337 C CYS 364 1_555 C SG CYS 385 C CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf15 C SG CYS 569 C CYS 596 1_555 C SG CYS 606 C CYS 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 D SG CYS 89 D CYS 116 1_555 D SG CYS 546 D CYS 573 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf17 D SG CYS 106 D CYS 133 1_555 D SG CYS 502 D CYS 529 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf18 D SG CYS 180 D CYS 207 1_555 D SG CYS 244 D CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf19 D SG CYS 337 D CYS 364 1_555 D SG CYS 385 D CYS 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf20 D SG CYS 569 D CYS 596 1_555 D SG CYS 606 D CYS 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 114 A ASN 141 1_555 I C1 NAG . A NAG 1141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 371 A ASN 398 1_555 E C1 NAG . A NAG 1398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 647 A ASN 674 1_555 F C1 NAG . A NAG 1674 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 B ND2 ASN 403 B ASN 430 1_555 J C1 NAG . B NAG 1430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale5 C ND2 ASN 114 C ASN 141 1_555 L C1 NAG . C NAG 1141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 C ND2 ASN 371 C ASN 398 1_555 M C1 NAG . C NAG 1398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale7 C ND2 ASN 647 C ASN 674 1_555 N C1 NAG . C NAG 1674 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 D ND2 ASN 114 D ASN 141 1_555 O C1 NAG . D NAG 1141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? metalc ? metalc1 H NA NA . A NA 751 1_555 B O PRO 209 B PRO 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.195 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3NWF _atom_sites.fract_transf_matrix[1][1] 0.008489 _atom_sites.fract_transf_matrix[1][2] 0.004901 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009802 _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] 0.003141 _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 2 NAG A 1 1398 1398 NAG NAG . F 2 NAG A 1 1674 1674 NAG NAG . G 3 MRY A 1 4000 4000 MRY MRY . H 4 NA A 1 751 78 NA NA . I 2 NAG A 1 1141 1141 NAG NAG . J 2 NAG B 1 1430 1430 NAG NAG . K 3 MRY B 1 4000 4000 MRY MRY . L 2 NAG C 1 1141 1141 NAG NAG . M 2 NAG C 1 1398 1398 NAG NAG . N 2 NAG C 1 1674 1674 NAG NAG . O 2 NAG D 1 1141 1141 NAG NAG . P 5 HOH A 1 1 1 HOH HOH . P 5 HOH A 2 6 6 HOH HOH . P 5 HOH A 3 11 11 HOH HOH . P 5 HOH A 4 12 12 HOH HOH . P 5 HOH A 5 13 13 HOH HOH . P 5 HOH A 6 14 14 HOH HOH . P 5 HOH A 7 15 15 HOH HOH . P 5 HOH A 8 16 16 HOH HOH . P 5 HOH A 9 17 17 HOH HOH . P 5 HOH A 10 18 18 HOH HOH . P 5 HOH A 11 19 19 HOH HOH . P 5 HOH A 12 20 20 HOH HOH . P 5 HOH A 13 731 38 HOH HOH . P 5 HOH A 14 732 39 HOH HOH . P 5 HOH A 15 733 44 HOH HOH . P 5 HOH A 16 734 47 HOH HOH . P 5 HOH A 17 735 48 HOH HOH . P 5 HOH A 18 736 49 HOH HOH . P 5 HOH A 19 737 51 HOH HOH . P 5 HOH A 20 738 53 HOH HOH . P 5 HOH A 21 739 54 HOH HOH . P 5 HOH A 22 740 55 HOH HOH . P 5 HOH A 23 741 62 HOH HOH . P 5 HOH A 24 742 64 HOH HOH . P 5 HOH A 25 743 65 HOH HOH . P 5 HOH A 26 744 66 HOH HOH . P 5 HOH A 27 745 67 HOH HOH . P 5 HOH A 28 746 68 HOH HOH . P 5 HOH A 29 747 69 HOH HOH . P 5 HOH A 30 748 70 HOH HOH . P 5 HOH A 31 749 76 HOH HOH . P 5 HOH A 32 750 77 HOH HOH . Q 5 HOH B 1 4 4 HOH HOH . Q 5 HOH B 2 5 5 HOH HOH . Q 5 HOH B 3 8 8 HOH HOH . Q 5 HOH B 4 9 9 HOH HOH . Q 5 HOH B 5 732 30 HOH HOH . Q 5 HOH B 6 733 31 HOH HOH . Q 5 HOH B 7 734 36 HOH HOH . Q 5 HOH B 8 735 37 HOH HOH . Q 5 HOH B 9 736 43 HOH HOH . Q 5 HOH B 10 737 45 HOH HOH . Q 5 HOH B 11 738 50 HOH HOH . Q 5 HOH B 12 739 52 HOH HOH . Q 5 HOH B 13 740 57 HOH HOH . Q 5 HOH B 14 741 58 HOH HOH . Q 5 HOH B 15 742 59 HOH HOH . Q 5 HOH B 16 743 60 HOH HOH . Q 5 HOH B 17 744 61 HOH HOH . R 5 HOH C 1 3 3 HOH HOH . R 5 HOH C 2 21 21 HOH HOH . R 5 HOH C 3 22 22 HOH HOH . R 5 HOH C 4 23 23 HOH HOH . R 5 HOH C 5 731 33 HOH HOH . R 5 HOH C 6 732 34 HOH HOH . R 5 HOH C 7 733 35 HOH HOH . R 5 HOH C 8 734 40 HOH HOH . R 5 HOH C 9 735 42 HOH HOH . R 5 HOH C 10 736 46 HOH HOH . R 5 HOH C 11 737 56 HOH HOH . R 5 HOH C 12 738 71 HOH HOH . S 5 HOH D 1 2 2 HOH HOH . S 5 HOH D 2 7 7 HOH HOH . S 5 HOH D 3 10 10 HOH HOH . S 5 HOH D 4 24 24 HOH HOH . S 5 HOH D 5 25 25 HOH HOH . S 5 HOH D 6 26 26 HOH HOH . S 5 HOH D 7 27 27 HOH HOH . S 5 HOH D 8 731 28 HOH HOH . S 5 HOH D 9 732 29 HOH HOH . S 5 HOH D 10 733 32 HOH HOH . S 5 HOH D 11 734 41 HOH HOH . S 5 HOH D 12 735 72 HOH HOH . S 5 HOH D 13 736 73 HOH HOH . S 5 HOH D 14 737 74 HOH HOH . S 5 HOH D 15 738 75 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id H _atom_site.label_entity_id 4 _atom_site.Cartn_x 66.76 _atom_site.Cartn_y -7.218 _atom_site.Cartn_z 164.4 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 63.65 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 751 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #