data_6DHN # _model_server_result.job_id V1m1bC4EFMs5E5RTyI6pgQ _model_server_result.datetime_utc '2024-10-19 20:02:39' _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":"J","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 . . . J 4 24.509 15.163 56.277 1 76.7 ? PA NAI 604 A 1 HETATM 2 O O1A NAI . . . J 4 25.777 15.485 57.036 1 74.39 -1 O1A NAI 604 A 1 HETATM 3 O O2A NAI . . . J 4 24.94 14.661 54.91 1 37.95 ? O2A NAI 604 A 1 HETATM 4 O O5B NAI . . . J 4 23.681 13.998 57.105 1 46.2 ? O5B NAI 604 A 1 HETATM 5 C C5B NAI . . . J 4 22.465 14.416 57.672 0.05 47.79 ? C5B NAI 604 A 1 HETATM 6 C C4B NAI . . . J 4 22.089 13.717 59.007 1 47.77 ? C4B NAI 604 A 1 HETATM 7 O O4B NAI . . . J 4 21.053 12.942 58.815 1 44.16 ? O4B NAI 604 A 1 HETATM 8 C C3B NAI . . . J 4 23.217 12.783 59.484 1 59.32 ? C3B NAI 604 A 1 HETATM 9 O O3B NAI . . . J 4 23.225 12.722 60.843 1 50.58 ? O3B NAI 604 A 1 HETATM 10 C C2B NAI . . . J 4 22.88 11.42 58.823 1 59.94 ? C2B NAI 604 A 1 HETATM 11 O O2B NAI . . . J 4 23.097 10.269 59.759 1 46.55 ? O2B NAI 604 A 1 HETATM 12 C C1B NAI . . . J 4 21.63 11.48 58.405 1 54.95 ? C1B NAI 604 A 1 HETATM 13 N N9A NAI . . . J 4 21.578 11.262 56.967 0 42.28 ? N9A NAI 604 A 1 HETATM 14 C C8A NAI . . . J 4 22.652 11.287 56.166 1 38.98 ? C8A NAI 604 A 1 HETATM 15 N N7A NAI . . . J 4 22.254 11.049 54.914 1 33.56 ? N7A NAI 604 A 1 HETATM 16 C C5A NAI . . . J 4 20.932 10.858 54.923 1 37.94 ? C5A NAI 604 A 1 HETATM 17 C C6A NAI . . . J 4 20.045 10.579 53.904 1 28.75 ? C6A NAI 604 A 1 HETATM 18 N N6A NAI . . . J 4 20.257 10.393 52.477 0 22.75 ? N6A NAI 604 A 1 HETATM 19 N N1A NAI . . . J 4 18.758 10.436 54.168 0.92 29.38 ? N1A NAI 604 A 1 HETATM 20 C C2A NAI . . . J 4 18.321 10.566 55.443 1 36.19 ? C2A NAI 604 A 1 HETATM 21 N N3A NAI . . . J 4 19.19 10.841 56.449 1 43.19 ? N3A NAI 604 A 1 HETATM 22 C C4A NAI . . . J 4 20.505 10.989 56.188 1 45.29 ? C4A NAI 604 A 1 HETATM 23 O O3 NAI . . . J 4 23.563 16.542 56.239 1 51.77 ? O3 NAI 604 A 1 HETATM 24 P PN NAI . . . J 4 22.194 16.908 55.361 0 34.61 ? PN NAI 604 A 1 HETATM 25 O O1N NAI . . . J 4 21.074 16.015 55.838 1 41.5 -1 O1N NAI 604 A 1 HETATM 26 O O2N NAI . . . J 4 22.432 16.703 53.879 1 38.27 ? O2N NAI 604 A 1 HETATM 27 O O5D NAI . . . J 4 21.68 18.476 55.584 0 25.07 ? O5D NAI 604 A 1 HETATM 28 C C5D NAI . . . J 4 20.328 18.8 55.874 0 20.51 ? C5D NAI 604 A 1 HETATM 29 C C4D NAI . . . J 4 19.923 20.197 55.278 0 17.39 ? C4D NAI 604 A 1 HETATM 30 O O4D NAI . . . J 4 20.11 20.247 53.984 1 15.83 ? O4D NAI 604 A 1 HETATM 31 C C3D NAI . . . J 4 18.427 20.528 55.508 1 14.07 ? C3D NAI 604 A 1 HETATM 32 O O3D NAI . . . J 4 18.192 21.813 55.91 0 14.46 ? O3D NAI 604 A 1 HETATM 33 C C2D NAI . . . J 4 17.742 20.175 54.166 0 16.62 ? C2D NAI 604 A 1 HETATM 34 O O2D NAI . . . J 4 16.717 21.145 53.668 1 12.1 ? O2D NAI 604 A 1 HETATM 35 C C1D NAI . . . J 4 18.679 19.957 53.28 0 17.23 ? C1D NAI 604 A 1 HETATM 36 N N1N NAI . . . J 4 18.53 18.561 53.013 1 27.45 ? N1N NAI 604 A 1 HETATM 37 C C2N NAI . . . J 4 17.215 17.973 52.87 1 24.83 ? C2N NAI 604 A 1 HETATM 38 C C3N NAI . . . J 4 16.871 17.005 53.992 1 16.76 ? C3N NAI 604 A 1 HETATM 39 C C7N NAI . . . J 4 15.572 17.251 54.765 0 19.43 ? C7N NAI 604 A 1 HETATM 40 O O7N NAI . . . J 4 15.429 18.267 55.352 1 16.31 ? O7N NAI 604 A 1 HETATM 41 N N7N NAI . . . J 4 14.499 16.274 54.78 1 21.37 ? N7N NAI 604 A 1 HETATM 42 C C4N NAI . . . J 4 18.104 16.512 54.752 0 21.31 ? C4N NAI 604 A 1 HETATM 43 C C5N NAI . . . J 4 19.339 16.43 53.853 0 22.29 ? C5N NAI 604 A 1 HETATM 44 C C6N NAI . . . J 4 19.642 17.656 52.993 1 23.36 ? C6N NAI 604 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 41 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #