data_2DAP
#
_model_server_result.job_id            damPacKcN9PHj1a0kkFYfg 
_model_server_result.datetime_utc      '2024-11-07 20:46:36' 
_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          2dap 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":902}' 
#
_entry.id    2DAP 
#
_exptl.entry_id    2DAP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              190.197 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '2,6-DIAMINOPIMELIC ACID' 
_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            2DAP 
_cell.length_a            121.64 
_cell.length_b            121.64 
_cell.length_c            52.36 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2DAP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        150 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 3 2 1' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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' 6_556 -x,-x+y,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 52.36 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C7 H14 N2 O4' 
_chem_comp.formula_weight    190.197 
_chem_comp.id                API 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              '2,6-DIAMINOPIMELIC ACID' 
_chem_comp.type              'l-peptide linking' 
_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
C CA API sing 13 n n 
C O API doub 14 n n 
C OXT API sing 15 n n 
CA C3 API sing 16 n n 
CA N API sing 17 n n 
CA HA API sing 18 n n 
C3 C4 API sing 19 n n 
C3 H31 API sing 20 n n 
C3 H32 API sing 21 n n 
C4 C5 API sing 22 n n 
C4 H41 API sing 23 n n 
C4 H42 API sing 24 n n 
C5 C6 API sing 25 n n 
C5 H51 API sing 26 n n 
C5 H52 API sing 27 n n 
C6 C7 API sing 28 n n 
C6 N6 API sing 29 n n 
C6 H6 API sing 30 n n 
C7 O3 API doub 31 n n 
C7 O4 API sing 32 n n 
OXT HXT API sing 33 n n 
O4 HO4 API sing 34 n n 
N H API sing 35 n n 
N H2 API sing 36 n n 
N6 HN61 API sing 37 n n 
N6 HN62 API sing 38 n n 
#
_atom_sites.entry_id                     2DAP 
_atom_sites.fract_transf_matrix[1][1]    0.008221 
_atom_sites.fract_transf_matrix[1][2]    0.004746 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009493 
_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]    0.019099 
_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
B 2 API A 1 902 902 API API . 
C 3 HOH A 1 911 911 HOH HOH . 
C 3 HOH A 2 912 912 HOH HOH . 
C 3 HOH A 3 913 913 HOH HOH . 
C 3 HOH A 4 914 914 HOH HOH . 
C 3 HOH A 5 915 915 HOH HOH . 
C 3 HOH A 6 916 916 HOH HOH . 
C 3 HOH A 7 917 917 HOH HOH . 
C 3 HOH A 8 918 918 HOH HOH . 
C 3 HOH A 9 919 919 HOH HOH . 
C 3 HOH A 10 920 920 HOH HOH . 
C 3 HOH A 11 921 921 HOH HOH . 
C 3 HOH A 12 922 922 HOH HOH . 
C 3 HOH A 13 923 923 HOH HOH . 
C 3 HOH A 14 924 924 HOH HOH . 
C 3 HOH A 15 925 925 HOH HOH . 
C 3 HOH A 16 926 926 HOH HOH . 
C 3 HOH A 17 927 927 HOH HOH . 
C 3 HOH A 18 928 928 HOH HOH . 
C 3 HOH A 19 929 929 HOH HOH . 
C 3 HOH A 20 930 930 HOH HOH . 
C 3 HOH A 21 931 931 HOH HOH . 
C 3 HOH A 22 932 932 HOH HOH . 
C 3 HOH A 23 933 933 HOH HOH . 
C 3 HOH A 24 934 934 HOH HOH . 
C 3 HOH A 25 935 935 HOH HOH . 
C 3 HOH A 26 936 936 HOH HOH . 
C 3 HOH A 27 937 937 HOH HOH . 
C 3 HOH A 28 938 938 HOH HOH . 
C 3 HOH A 29 939 939 HOH HOH . 
C 3 HOH A 30 940 940 HOH HOH . 
C 3 HOH A 31 941 941 HOH HOH . 
C 3 HOH A 32 942 942 HOH HOH . 
C 3 HOH A 33 943 943 HOH HOH . 
C 3 HOH A 34 944 944 HOH HOH . 
C 3 HOH A 35 945 945 HOH HOH . 
C 3 HOH A 36 946 946 HOH HOH . 
C 3 HOH A 37 947 947 HOH HOH . 
C 3 HOH A 38 948 948 HOH HOH . 
C 3 HOH A 39 949 949 HOH HOH . 
C 3 HOH A 40 950 950 HOH HOH . 
C 3 HOH A 41 951 951 HOH HOH . 
C 3 HOH A 42 952 952 HOH HOH . 
C 3 HOH A 43 953 953 HOH HOH . 
C 3 HOH A 44 954 954 HOH HOH . 
C 3 HOH A 45 955 955 HOH HOH . 
C 3 HOH A 46 956 956 HOH HOH . 
C 3 HOH A 47 957 957 HOH HOH . 
C 3 HOH A 48 958 958 HOH HOH . 
C 3 HOH A 49 959 959 HOH HOH . 
C 3 HOH A 50 960 960 HOH HOH . 
C 3 HOH A 51 961 961 HOH HOH . 
C 3 HOH A 52 962 962 HOH HOH . 
C 3 HOH A 53 963 963 HOH HOH . 
C 3 HOH A 54 964 964 HOH HOH . 
C 3 HOH A 55 965 965 HOH HOH . 
C 3 HOH A 56 966 966 HOH HOH . 
C 3 HOH A 57 967 967 HOH HOH . 
C 3 HOH A 58 968 968 HOH HOH . 
C 3 HOH A 59 969 969 HOH HOH . 
C 3 HOH A 60 970 970 HOH HOH . 
C 3 HOH A 61 971 971 HOH HOH . 
C 3 HOH A 62 972 972 HOH HOH . 
C 3 HOH A 63 973 973 HOH HOH . 
C 3 HOH A 64 974 974 HOH HOH . 
C 3 HOH A 65 975 975 HOH HOH . 
C 3 HOH A 66 976 976 HOH HOH . 
C 3 HOH A 67 977 977 HOH HOH . 
C 3 HOH A 68 978 978 HOH HOH . 
C 3 HOH A 69 979 979 HOH HOH . 
C 3 HOH A 70 980 980 HOH HOH . 
C 3 HOH A 71 981 981 HOH HOH . 
C 3 HOH A 72 982 982 HOH HOH . 
C 3 HOH A 73 983 983 HOH HOH . 
C 3 HOH A 74 984 984 HOH HOH . 
C 3 HOH A 75 985 985 HOH HOH . 
C 3 HOH A 76 986 986 HOH HOH . 
C 3 HOH A 77 987 987 HOH HOH . 
C 3 HOH A 78 988 988 HOH HOH . 
C 3 HOH A 79 989 989 HOH HOH . 
C 3 HOH A 80 990 990 HOH HOH . 
C 3 HOH A 81 991 991 HOH HOH . 
C 3 HOH A 82 992 992 HOH HOH . 
C 3 HOH A 83 993 993 HOH HOH . 
C 3 HOH A 84 994 994 HOH HOH . 
C 3 HOH A 85 995 995 HOH HOH . 
C 3 HOH A 86 996 996 HOH HOH . 
C 3 HOH A 87 997 997 HOH HOH . 
C 3 HOH A 88 998 998 HOH HOH . 
C 3 HOH A 89 999 999 HOH HOH . 
C 3 HOH A 90 1000 1000 HOH HOH . 
C 3 HOH A 91 1001 1001 HOH HOH . 
C 3 HOH A 92 1002 1002 HOH HOH . 
C 3 HOH A 93 1003 1003 HOH HOH . 
C 3 HOH A 94 1004 1004 HOH HOH . 
C 3 HOH A 95 1005 1005 HOH HOH . 
C 3 HOH A 96 1006 1006 HOH HOH . 
C 3 HOH A 97 1007 1007 HOH HOH . 
C 3 HOH A 98 1008 1008 HOH HOH . 
C 3 HOH A 99 1009 1009 HOH HOH . 
C 3 HOH A 100 1010 1010 HOH HOH . 
C 3 HOH A 101 1011 1011 HOH HOH . 
C 3 HOH A 102 1012 1012 HOH HOH . 
C 3 HOH A 103 1013 1013 HOH HOH . 
C 3 HOH A 104 1014 1014 HOH HOH . 
C 3 HOH A 105 1015 1015 HOH HOH . 
C 3 HOH A 106 1016 1016 HOH HOH . 
C 3 HOH A 107 1017 1017 HOH HOH . 
C 3 HOH A 108 1018 1018 HOH HOH . 
C 3 HOH A 109 1019 1019 HOH HOH . 
C 3 HOH A 110 1020 1020 HOH HOH . 
C 3 HOH A 111 1021 1021 HOH HOH . 
C 3 HOH A 112 1022 1022 HOH HOH . 
C 3 HOH A 113 1023 1023 HOH HOH . 
C 3 HOH A 114 1024 1024 HOH HOH . 
C 3 HOH A 115 1025 1025 HOH HOH . 
C 3 HOH A 116 1026 1026 HOH HOH . 
C 3 HOH A 117 1027 1027 HOH HOH . 
C 3 HOH A 118 1028 1028 HOH HOH . 
C 3 HOH A 119 1029 1029 HOH HOH . 
C 3 HOH A 120 1030 1030 HOH HOH . 
C 3 HOH A 121 1031 1031 HOH HOH . 
C 3 HOH A 122 1032 1032 HOH HOH . 
C 3 HOH A 123 1033 1033 HOH HOH . 
C 3 HOH A 124 1034 1034 HOH HOH . 
C 3 HOH A 125 1035 1035 HOH HOH . 
C 3 HOH A 126 1036 1036 HOH HOH . 
C 3 HOH A 127 1037 1037 HOH HOH . 
C 3 HOH A 128 1038 1038 HOH HOH . 
C 3 HOH A 129 1039 1039 HOH HOH . 
C 3 HOH A 130 1040 1040 HOH HOH . 
C 3 HOH A 131 1041 1041 HOH HOH . 
C 3 HOH A 132 1042 1042 HOH HOH . 
C 3 HOH A 133 1043 1043 HOH HOH . 
C 3 HOH A 134 1044 1044 HOH HOH . 
C 3 HOH A 135 1045 1045 HOH HOH . 
C 3 HOH A 136 1046 1046 HOH HOH . 
C 3 HOH A 137 1047 1047 HOH HOH . 
C 3 HOH A 138 1048 1048 HOH HOH . 
C 3 HOH A 139 1049 1049 HOH HOH . 
C 3 HOH A 140 1050 1050 HOH HOH . 
C 3 HOH A 141 1051 1051 HOH HOH . 
C 3 HOH A 142 1052 1052 HOH HOH . 
C 3 HOH A 143 1053 1053 HOH HOH . 
C 3 HOH A 144 1054 1054 HOH HOH . 
C 3 HOH A 145 1055 1055 HOH HOH . 
C 3 HOH A 146 1056 1056 HOH HOH . 
C 3 HOH A 147 1057 1057 HOH HOH . 
C 3 HOH A 148 1058 1058 HOH HOH . 
C 3 HOH A 149 1059 1059 HOH HOH . 
C 3 HOH A 150 1060 1060 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 C C API . . . B 2 -18.775 53.345 11.61 1 10.82 ? C API 902 A 1 
HETATM 2 C CA API . . . B 2 -18.55 51.842 11.972 1 10.24 ? CA API 902 A 1 
HETATM 3 C C3 API . . . B 2 -17.378 51.807 12.955 1 10.59 ? C3 API 902 A 1 
HETATM 4 C C4 API . . . B 2 -16.911 50.796 13.8 1 8.63 ? C4 API 902 A 1 
HETATM 5 C C5 API . . . B 2 -15.893 50.989 14.763 1 10.69 ? C5 API 902 A 1 
HETATM 6 C C6 API . . . B 2 -14.434 50.921 14.61 1 14.5 ? C6 API 902 A 1 
HETATM 7 C C7 API . . . B 2 -13.979 52.098 13.839 1 12.49 ? C7 API 902 A 1 
HETATM 8 O O API . . . B 2 -18.65 54.295 12.271 1 6.67 ? O API 902 A 1 
HETATM 9 O OXT API . . . B 2 -19.098 53.467 10.459 1 8.24 ? OXT API 902 A 1 
HETATM 10 O O3 API . . . B 2 -13.556 52.079 12.777 1 15.8 ? O3 API 902 A 1 
HETATM 11 O O4 API . . . B 2 -14.096 53.163 14.385 1 15.02 ? O4 API 902 A 1 
HETATM 12 N N API . . . B 2 -18.248 51.116 10.708 1 14.37 ? N API 902 A 1 
HETATM 13 N N6 API . . . B 2 -14.192 49.753 13.787 1 20.19 ? N6 API 902 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           13 
#