data_2OD9
#
_model_server_result.job_id            W1aBGbft2JdLtel4zqyT2Q 
_model_server_result.datetime_utc      '2024-11-15 04:09:42' 
_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          2od9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":3721}' 
#
_entry.id    2OD9 
#
_exptl.entry_id    2OD9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              122.125 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            NICOTINAMIDE 
_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            2OD9 
_cell.length_a            105.94 
_cell.length_b            105.94 
_cell.length_c            67.1 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2OD9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA tetrameric 4 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G 1 1 
A,B,C,D,E,F,G 2 1,2 
#
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' 5_675 x-y+1,-y+2,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 183.493463 22.366667 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             E 
_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
covale ? covale1 B C ALA 4 B ALA 15 1_555 B N ALY 5 B ALY 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale2 B C ALY 5 B ALY 16 1_555 B N ARG 6 B ARG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
metalc ? metalc1 A SG CYS 157 A CYS 143 1_555 C ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
metalc ? metalc2 A SG CYS 160 A CYS 146 1_555 C ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? 
metalc ? metalc3 A SG CYS 184 A CYS 170 1_555 C ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? 
metalc ? metalc4 A SG CYS 187 A CYS 173 1_555 C ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
#
_chem_comp.formula           'C6 H6 N2 O' 
_chem_comp.formula_weight    122.125 
_chem_comp.id                NCA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              NICOTINAMIDE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
N1 C2 NCA doub 327 n y 
N1 C6 NCA sing 328 n y 
C2 C3 NCA sing 329 n y 
C2 H2 NCA sing 330 n n 
C3 C4 NCA doub 331 n y 
C3 C7 NCA sing 332 n n 
C4 C5 NCA sing 333 n y 
C4 H4 NCA sing 334 n n 
C5 C6 NCA doub 335 n y 
C5 H5 NCA sing 336 n n 
C6 H6 NCA sing 337 n n 
C7 O7 NCA doub 338 n n 
C7 N7 NCA sing 339 n n 
N7 HN71 NCA sing 340 n n 
N7 HN72 NCA sing 341 n n 
#
_atom_sites.entry_id                     2OD9 
_atom_sites.fract_transf_matrix[1][1]    0.009439 
_atom_sites.fract_transf_matrix[1][2]    0.00545 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.0109 
_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]    0.014903 
_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
C 3 ZN A 1 701 701 ZN ZN . 
D 4 A1R A 1 1001 1001 A1R A1R . 
E 5 NCA A 1 3721 3721 NCA NCA . 
F 6 HOH A 1 3722 1 HOH HOH . 
F 6 HOH A 2 3723 2 HOH HOH . 
F 6 HOH A 3 3724 3 HOH HOH . 
F 6 HOH A 4 3725 4 HOH HOH . 
F 6 HOH A 5 3726 5 HOH HOH . 
F 6 HOH A 6 3727 6 HOH HOH . 
F 6 HOH A 7 3728 7 HOH HOH . 
F 6 HOH A 8 3729 8 HOH HOH . 
F 6 HOH A 9 3730 9 HOH HOH . 
F 6 HOH A 10 3731 10 HOH HOH . 
F 6 HOH A 11 3732 11 HOH HOH . 
F 6 HOH A 12 3733 12 HOH HOH . 
F 6 HOH A 13 3734 13 HOH HOH . 
F 6 HOH A 14 3735 14 HOH HOH . 
F 6 HOH A 15 3736 15 HOH HOH . 
F 6 HOH A 16 3737 16 HOH HOH . 
F 6 HOH A 17 3738 17 HOH HOH . 
F 6 HOH A 18 3739 18 HOH HOH . 
F 6 HOH A 19 3740 19 HOH HOH . 
F 6 HOH A 20 3741 20 HOH HOH . 
F 6 HOH A 21 3742 21 HOH HOH . 
F 6 HOH A 22 3743 22 HOH HOH . 
F 6 HOH A 23 3744 23 HOH HOH . 
F 6 HOH A 24 3745 24 HOH HOH . 
F 6 HOH A 25 3746 25 HOH HOH . 
F 6 HOH A 26 3747 26 HOH HOH . 
F 6 HOH A 27 3748 27 HOH HOH . 
F 6 HOH A 28 3749 29 HOH HOH . 
F 6 HOH A 29 3750 30 HOH HOH . 
F 6 HOH A 30 3751 31 HOH HOH . 
F 6 HOH A 31 3752 32 HOH HOH . 
F 6 HOH A 32 3753 33 HOH HOH . 
F 6 HOH A 33 3754 34 HOH HOH . 
F 6 HOH A 34 3755 35 HOH HOH . 
F 6 HOH A 35 3756 36 HOH HOH . 
F 6 HOH A 36 3757 37 HOH HOH . 
F 6 HOH A 37 3758 38 HOH HOH . 
F 6 HOH A 38 3759 39 HOH HOH . 
F 6 HOH A 39 3760 40 HOH HOH . 
F 6 HOH A 40 3761 41 HOH HOH . 
F 6 HOH A 41 3762 42 HOH HOH . 
F 6 HOH A 42 3763 43 HOH HOH . 
F 6 HOH A 43 3764 44 HOH HOH . 
F 6 HOH A 44 3765 45 HOH HOH . 
F 6 HOH A 45 3766 47 HOH HOH . 
F 6 HOH A 46 3767 48 HOH HOH . 
F 6 HOH A 47 3768 49 HOH HOH . 
F 6 HOH A 48 3769 50 HOH HOH . 
F 6 HOH A 49 3770 51 HOH HOH . 
F 6 HOH A 50 3771 52 HOH HOH . 
F 6 HOH A 51 3772 53 HOH HOH . 
F 6 HOH A 52 3773 54 HOH HOH . 
F 6 HOH A 53 3774 55 HOH HOH . 
F 6 HOH A 54 3775 56 HOH HOH . 
F 6 HOH A 55 3776 57 HOH HOH . 
F 6 HOH A 56 3777 58 HOH HOH . 
F 6 HOH A 57 3778 59 HOH HOH . 
F 6 HOH A 58 3779 60 HOH HOH . 
F 6 HOH A 59 3780 61 HOH HOH . 
F 6 HOH A 60 3781 62 HOH HOH . 
F 6 HOH A 61 3782 63 HOH HOH . 
F 6 HOH A 62 3783 64 HOH HOH . 
F 6 HOH A 63 3784 65 HOH HOH . 
F 6 HOH A 64 3785 66 HOH HOH . 
F 6 HOH A 65 3786 67 HOH HOH . 
F 6 HOH A 66 3787 68 HOH HOH . 
F 6 HOH A 67 3788 69 HOH HOH . 
F 6 HOH A 68 3789 70 HOH HOH . 
F 6 HOH A 69 3790 71 HOH HOH . 
F 6 HOH A 70 3791 72 HOH HOH . 
F 6 HOH A 71 3792 73 HOH HOH . 
F 6 HOH A 72 3793 74 HOH HOH . 
F 6 HOH A 73 3794 75 HOH HOH . 
F 6 HOH A 74 3795 76 HOH HOH . 
F 6 HOH A 75 3796 77 HOH HOH . 
F 6 HOH A 76 3797 78 HOH HOH . 
F 6 HOH A 77 3798 79 HOH HOH . 
F 6 HOH A 78 3799 80 HOH HOH . 
F 6 HOH A 79 3800 81 HOH HOH . 
F 6 HOH A 80 3801 82 HOH HOH . 
F 6 HOH A 81 3802 83 HOH HOH . 
F 6 HOH A 82 3803 84 HOH HOH . 
F 6 HOH A 83 3804 85 HOH HOH . 
F 6 HOH A 84 3805 86 HOH HOH . 
F 6 HOH A 85 3806 87 HOH HOH . 
F 6 HOH A 86 3807 88 HOH HOH . 
F 6 HOH A 87 3808 89 HOH HOH . 
F 6 HOH A 88 3809 90 HOH HOH . 
F 6 HOH A 89 3810 91 HOH HOH . 
F 6 HOH A 90 3811 92 HOH HOH . 
F 6 HOH A 91 3812 93 HOH HOH . 
F 6 HOH A 92 3813 94 HOH HOH . 
F 6 HOH A 93 3814 95 HOH HOH . 
F 6 HOH A 94 3815 96 HOH HOH . 
F 6 HOH A 95 3816 97 HOH HOH . 
F 6 HOH A 96 3817 98 HOH HOH . 
F 6 HOH A 97 3818 99 HOH HOH . 
F 6 HOH A 98 3819 100 HOH HOH . 
F 6 HOH A 99 3820 101 HOH HOH . 
F 6 HOH A 100 3821 102 HOH HOH . 
F 6 HOH A 101 3822 103 HOH HOH . 
F 6 HOH A 102 3823 104 HOH HOH . 
F 6 HOH A 103 3824 105 HOH HOH . 
F 6 HOH A 104 3825 106 HOH HOH . 
F 6 HOH A 105 3826 107 HOH HOH . 
F 6 HOH A 106 3827 108 HOH HOH . 
F 6 HOH A 107 3828 109 HOH HOH . 
F 6 HOH A 108 3829 110 HOH HOH . 
F 6 HOH A 109 3830 111 HOH HOH . 
F 6 HOH A 110 3831 112 HOH HOH . 
F 6 HOH A 111 3832 113 HOH HOH . 
F 6 HOH A 112 3833 114 HOH HOH . 
F 6 HOH A 113 3834 115 HOH HOH . 
F 6 HOH A 114 3835 116 HOH HOH . 
G 6 HOH B 1 28 28 HOH HOH . 
G 6 HOH B 2 46 46 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 N N1 NCA . . . E 5 17.794 77.745 15.285 0.6 74.8 ? N1 NCA 3721 A 1 
HETATM 2 C C2 NCA . . . E 5 16.885 77.883 14.343 0.6 74.55 ? C2 NCA 3721 A 1 
HETATM 3 C C3 NCA . . . E 5 15.56 78.162 14.671 0.6 74.07 ? C3 NCA 3721 A 1 
HETATM 4 C C4 NCA . . . E 5 15.208 78.285 16.019 0.6 74.56 ? C4 NCA 3721 A 1 
HETATM 5 C C5 NCA . . . E 5 16.199 78.125 16.972 0.6 74.91 ? C5 NCA 3721 A 1 
HETATM 6 C C6 NCA . . . E 5 17.492 77.853 16.565 0.6 74.88 ? C6 NCA 3721 A 1 
HETATM 7 C C7 NCA . . . E 5 14.542 78.324 13.611 0.6 73.55 ? C7 NCA 3721 A 1 
HETATM 8 O O7 NCA . . . E 5 13.388 78.564 13.909 0.6 73.2 ? O7 NCA 3721 A 1 
HETATM 9 N N7 NCA . . . E 5 14.892 78.205 12.316 0.6 73.06 ? N7 NCA 3721 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           9 
#