data_6DHN # _model_server_result.job_id yd6GYXjJm26bcSSQMDJHyA _model_server_result.datetime_utc '2024-11-27 22:44:58' _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 6dhn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":604}' # _entry.id 6DHN # _exptl.entry_id 6DHN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 665.441 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _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 101.55 _cell.angle_gamma 90 _cell.entry_id 6DHN _cell.length_a 121.11 _cell.length_b 98.76 _cell.length_c 165.64 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DHN _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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,BA,CA,DA _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 I N N ? 4 J N N ? 4 M N N ? 4 N N N ? 4 Q N N ? 4 R N N ? 4 U N N ? 4 V N N ? 4 Y N N ? 4 Z N N ? 4 BA N N ? 4 DA N 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 covale ? covale1 A ND2 ASN 469 A ASN 388 1_555 J O3D NAI . A NAI 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale2 C NH2 ARG 346 C ARG 265 1_555 P O1G GTP . C GTP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.298 ? covale ? covale3 D NH1 ARG 167 D ARG 86 1_555 V O7N NAI . D NAI 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? covale ? covale4 D NH1 ARG 346 D ARG 265 1_555 T O2G GTP . D GTP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale5 E NH2 ARG 346 E ARG 265 1_555 X O2G GTP . E GTP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.298 ? # _chem_comp.formula 'C21 H29 N7 O14 P2' _chem_comp.formula_weight 665.441 _chem_comp.id NAI _chem_comp.mon_nstd_flag . _chem_comp.name '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms NADH # _atom_sites.entry_id 6DHN _atom_sites.fract_transf_matrix[1][1] 0.008257 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001687 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010126 _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] 0.006162 _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 G 2 GLU A 1 601 601 GLU GLU . H 3 GTP A 1 602 602 GTP GTP . I 4 NAI A 1 603 603 NAI NAI . J 4 NAI A 1 604 604 NAI NAI . K 2 GLU B 1 601 601 GLU GLU . L 3 GTP B 1 602 602 GTP GTP . M 4 NAI B 1 603 603 NAI NAI . N 4 NAI B 1 604 605 NAI NAI . O 2 GLU C 1 601 601 GLU GLU . P 3 GTP C 1 602 602 GTP GTP . Q 4 NAI C 1 603 603 NAI NAI . R 4 NAI C 1 604 604 NAI NAI . S 2 GLU D 1 601 601 GLU GLU . T 3 GTP D 1 602 602 GTP GTP . U 4 NAI D 1 603 603 NAI NAI . V 4 NAI D 1 604 604 NAI NAI . W 2 GLU E 1 601 601 GLU GLU . X 3 GTP E 1 602 602 GTP GTP . Y 4 NAI E 1 603 603 NAI NAI . Z 4 NAI F 1 601 605 NAI NAI . AA 2 GLU F 1 602 601 GLU GLU . BA 4 NAI F 1 603 602 NAI NAI . CA 3 GTP F 1 604 603 GTP GTP . DA 4 NAI F 1 605 604 NAI NAI . # 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 P PA NAI . . . V 4 -30.811 25.001 50.761 1 93.69 ? PA NAI 604 D 1 HETATM 2 O O1A NAI . . . V 4 -31.266 23.939 51.741 1 67.26 -1 O1A NAI 604 D 1 HETATM 3 O O2A NAI . . . V 4 -31.54 24.743 49.46 1 57.86 ? O2A NAI 604 D 1 HETATM 4 O O5B NAI . . . V 4 -31.176 26.525 51.333 1 67.35 ? O5B NAI 604 D 1 HETATM 5 C C5B NAI . . . V 4 -32.351 26.803 52.067 1 50.47 ? C5B NAI 604 D 1 HETATM 6 C C4B NAI . . . V 4 -32.42 26.016 53.417 1 61.07 ? C4B NAI 604 D 1 HETATM 7 O O4B NAI . . . V 4 -31.26 25.484 53.713 1 61.62 ? O4B NAI 604 D 1 HETATM 8 C C3B NAI . . . V 4 -32.769 26.951 54.593 0 53.2 ? C3B NAI 604 D 1 HETATM 9 O O3B NAI . . . V 4 -34.053 26.784 55.016 1 48.41 ? O3B NAI 604 D 1 HETATM 10 C C2B NAI . . . V 4 -31.75 26.644 55.724 1 52.78 ? C2B NAI 604 D 1 HETATM 11 O O2B NAI . . . V 4 -32.42 26.009 56.906 1 42.56 ? O2B NAI 604 D 1 HETATM 12 C C1B NAI . . . V 4 -30.804 25.889 55.214 1 51.57 ? C1B NAI 604 D 1 HETATM 13 N N9A NAI . . . V 4 -29.551 26.61 55.106 1 53.49 ? N9A NAI 604 D 1 HETATM 14 C C8A NAI . . . V 4 -29.299 27.511 54.152 1 49 ? C8A NAI 604 D 1 HETATM 15 N N7A NAI . . . V 4 -28.063 27.989 54.323 1 44.59 ? N7A NAI 604 D 1 HETATM 16 C C5A NAI . . . V 4 -27.534 27.378 55.388 1 39.83 ? C5A NAI 604 D 1 HETATM 17 C C6A NAI . . . V 4 -26.3 27.502 55.985 1 28.71 ? C6A NAI 604 D 1 HETATM 18 N N6A NAI . . . V 4 -25.17 28.346 55.645 1 18.67 ? N6A NAI 604 D 1 HETATM 19 N N1A NAI . . . V 4 -26.001 26.775 57.047 1 25.53 ? N1A NAI 604 D 1 HETATM 20 C C2A NAI . . . V 4 -26.918 25.91 57.544 0.41 32.43 ? C2A NAI 604 D 1 HETATM 21 N N3A NAI . . . V 4 -28.135 25.786 56.96 1 41.3 ? N3A NAI 604 D 1 HETATM 22 C C4A NAI . . . V 4 -28.445 26.523 55.876 0 41.67 ? C4A NAI 604 D 1 HETATM 23 O O3 NAI . . . V 4 -29.18 24.841 50.465 1 53.09 ? O3 NAI 604 D 1 HETATM 24 P PN NAI . . . V 4 -27.919 25.781 51.004 0 40.05 ? PN NAI 604 D 1 HETATM 25 O O1N NAI . . . V 4 -27.32 25.18 52.257 1 35.43 -1 O1N NAI 604 D 1 HETATM 26 O O2N NAI . . . V 4 -28.369 27.198 51.282 1 55.06 ? O2N NAI 604 D 1 HETATM 27 O O5D NAI . . . V 4 -26.715 25.885 49.875 1 23.56 ? O5D NAI 604 D 1 HETATM 28 C C5D NAI . . . V 4 -25.952 27.06 49.962 1 23.69 ? C5D NAI 604 D 1 HETATM 29 C C4D NAI . . . V 4 -24.505 26.941 49.391 1 25.79 ? C4D NAI 604 D 1 HETATM 30 O O4D NAI . . . V 4 -23.573 26.71 50.278 1 15.9 ? O4D NAI 604 D 1 HETATM 31 C C3D NAI . . . V 4 -24.295 25.757 48.431 1 25.9 ? C3D NAI 604 D 1 HETATM 32 O O3D NAI . . . V 4 -24.809 26.058 47.215 0 19.06 ? O3D NAI 604 D 1 HETATM 33 C C2D NAI . . . V 4 -22.758 25.68 48.351 0 18.32 ? C2D NAI 604 D 1 HETATM 34 O O2D NAI . . . V 4 -22.374 26.159 46.994 1 15.09 ? O2D NAI 604 D 1 HETATM 35 C C1D NAI . . . V 4 -22.332 26.529 49.257 0 18.46 ? C1D NAI 604 D 1 HETATM 36 N N1N NAI . . . V 4 -21.117 26.12 49.923 1 21.26 ? N1N NAI 604 D 1 HETATM 37 C C2N NAI . . . V 4 -21.129 25.186 51.038 0 17.64 ? C2N NAI 604 D 1 HETATM 38 C C3N NAI . . . V 4 -20.024 25.244 52.098 1 17.42 ? C3N NAI 604 D 1 HETATM 39 C C7N NAI . . . V 4 -20.293 24.87 53.573 0 17.42 ? C7N NAI 604 D 1 HETATM 40 O O7N NAI . . . V 4 -21.35 24.482 53.994 0.91 19.1 ? O7N NAI 604 D 1 HETATM 41 N N7N NAI . . . V 4 -19.198 25.038 54.514 1 18.2 ? N7N NAI 604 D 1 HETATM 42 C C4N NAI . . . V 4 -18.781 26.106 51.833 1 10.1 ? C4N NAI 604 D 1 HETATM 43 C C5N NAI . . . V 4 -18.742 26.859 50.498 0 15.21 ? C5N NAI 604 D 1 HETATM 44 C C6N NAI . . . V 4 -19.857 26.671 49.476 0 16.44 ? C6N NAI 604 D 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 44 #