data_1MQ4
#
_model_server_result.job_id            rLLbtZI9axzjTBPNz8oILw 
_model_server_result.datetime_utc      '2024-10-31 07:19:54' 
_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          1mq4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":2001}' 
#
_entry.id    1MQ4 
#
_exptl.entry_id    1MQ4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_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            1MQ4 
_cell.length_a            80.452 
_cell.length_b            80.452 
_cell.length_c            172.172 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1MQ4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61 2 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_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
metalc ? metalc1 A OD1 ASN 142 A ASN 261 1_555 C MG MG . A MG 2088 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
metalc ? metalc2 A OD1 ASP 155 A ASP 274 1_555 B MG MG . A MG 2086 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? 
metalc ? metalc3 A OD2 ASP 155 A ASP 274 1_555 B MG MG . A MG 2086 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc4 A OD1 ASP 155 A ASP 274 1_555 C MG MG . A MG 2088 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.917 ? 
metalc ? metalc5 E O1B ADP . A ADP 2001 1_555 B MG MG . A MG 2086 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? 
metalc ? metalc6 E O2A ADP . A ADP 2001 1_555 C MG MG . A MG 2088 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.908 ? 
metalc ? metalc7 E O3B ADP . A ADP 2001 1_555 C MG MG . A MG 2088 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
metalc ? metalc8 B MG MG . A MG 2086 1_555 F O HOH . A HOH 2098 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? 
metalc ? metalc9 B MG MG . A MG 2086 1_555 F O HOH . A HOH 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? 
metalc ? metalc10 B MG MG . A MG 2086 1_555 F O HOH . A HOH 3004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? 
metalc ? metalc11 B MG MG . A MG 2086 1_555 F O HOH . A HOH 3022 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc12 C MG MG . A MG 2088 1_555 F O HOH . A HOH 3009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
metalc ? metalc13 C MG MG . A MG 2088 1_555 F O HOH . A HOH 3070 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     1MQ4 
_atom_sites.fract_transf_matrix[1][1]    0.01243 
_atom_sites.fract_transf_matrix[1][2]    0.007176 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014353 
_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]    0.005808 
_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 MG A 1 2086 2086 MG MG . 
C 2 MG A 1 2088 2088 MG MG . 
D 3 PO4 A 1 1 1 PO4 PO4 . 
E 4 ADP A 1 2001 2001 ADP ADP . 
F 5 HOH A 1 2089 2089 HOH HOH . 
F 5 HOH A 2 2090 2090 HOH HOH . 
F 5 HOH A 3 2091 2091 HOH HOH . 
F 5 HOH A 4 2092 2092 HOH HOH . 
F 5 HOH A 5 2093 2093 HOH HOH . 
F 5 HOH A 6 2094 2094 HOH HOH . 
F 5 HOH A 7 2095 2095 HOH HOH . 
F 5 HOH A 8 2096 2096 HOH HOH . 
F 5 HOH A 9 2097 2097 HOH HOH . 
F 5 HOH A 10 2098 2098 HOH HOH . 
F 5 HOH A 11 2099 2099 HOH HOH . 
F 5 HOH A 12 2100 2100 HOH HOH . 
F 5 HOH A 13 3001 3001 HOH HOH . 
F 5 HOH A 14 3003 3003 HOH HOH . 
F 5 HOH A 15 3004 3004 HOH HOH . 
F 5 HOH A 16 3005 3005 HOH HOH . 
F 5 HOH A 17 3006 3006 HOH HOH . 
F 5 HOH A 18 3007 3007 HOH HOH . 
F 5 HOH A 19 3008 3008 HOH HOH . 
F 5 HOH A 20 3009 3009 HOH HOH . 
F 5 HOH A 21 3010 3010 HOH HOH . 
F 5 HOH A 22 3011 3011 HOH HOH . 
F 5 HOH A 23 3012 3012 HOH HOH . 
F 5 HOH A 24 3013 3013 HOH HOH . 
F 5 HOH A 25 3014 3014 HOH HOH . 
F 5 HOH A 26 3015 3015 HOH HOH . 
F 5 HOH A 27 3017 3017 HOH HOH . 
F 5 HOH A 28 3018 3018 HOH HOH . 
F 5 HOH A 29 3021 3021 HOH HOH . 
F 5 HOH A 30 3022 3022 HOH HOH . 
F 5 HOH A 31 3023 3023 HOH HOH . 
F 5 HOH A 32 3024 3024 HOH HOH . 
F 5 HOH A 33 3026 3026 HOH HOH . 
F 5 HOH A 34 3027 3027 HOH HOH . 
F 5 HOH A 35 3028 3028 HOH HOH . 
F 5 HOH A 36 3029 3029 HOH HOH . 
F 5 HOH A 37 3030 3030 HOH HOH . 
F 5 HOH A 38 3031 3031 HOH HOH . 
F 5 HOH A 39 3032 3032 HOH HOH . 
F 5 HOH A 40 3033 3033 HOH HOH . 
F 5 HOH A 41 3034 3034 HOH HOH . 
F 5 HOH A 42 3036 3036 HOH HOH . 
F 5 HOH A 43 3037 3037 HOH HOH . 
F 5 HOH A 44 3038 3038 HOH HOH . 
F 5 HOH A 45 3039 3039 HOH HOH . 
F 5 HOH A 46 3040 3040 HOH HOH . 
F 5 HOH A 47 3041 3041 HOH HOH . 
F 5 HOH A 48 3043 3043 HOH HOH . 
F 5 HOH A 49 3044 3044 HOH HOH . 
F 5 HOH A 50 3045 3045 HOH HOH . 
F 5 HOH A 51 3046 3046 HOH HOH . 
F 5 HOH A 52 3047 3047 HOH HOH . 
F 5 HOH A 53 3048 3048 HOH HOH . 
F 5 HOH A 54 3049 3049 HOH HOH . 
F 5 HOH A 55 3050 3050 HOH HOH . 
F 5 HOH A 56 3051 3051 HOH HOH . 
F 5 HOH A 57 3052 3052 HOH HOH . 
F 5 HOH A 58 3054 3054 HOH HOH . 
F 5 HOH A 59 3055 3055 HOH HOH . 
F 5 HOH A 60 3056 3056 HOH HOH . 
F 5 HOH A 61 3057 3057 HOH HOH . 
F 5 HOH A 62 3058 3058 HOH HOH . 
F 5 HOH A 63 3059 3059 HOH HOH . 
F 5 HOH A 64 3060 3060 HOH HOH . 
F 5 HOH A 65 3061 3061 HOH HOH . 
F 5 HOH A 66 3062 3062 HOH HOH . 
F 5 HOH A 67 3063 3063 HOH HOH . 
F 5 HOH A 68 3064 3064 HOH HOH . 
F 5 HOH A 69 3066 3066 HOH HOH . 
F 5 HOH A 70 3067 3067 HOH HOH . 
F 5 HOH A 71 3068 3068 HOH HOH . 
F 5 HOH A 72 3070 3070 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 P PB ADP . . . E 4 -10.922 23.177 81 1 32.94 ? PB ADP 2001 A 1 
HETATM 2 O O1B ADP . . . E 4 -11.708 22.755 79.793 1 30.32 ? O1B ADP 2001 A 1 
HETATM 3 O O2B ADP . . . E 4 -10.446 22.008 81.842 1 35.66 ? O2B ADP 2001 A 1 
HETATM 4 O O3B ADP . . . E 4 -11.704 24.214 81.811 1 30.64 ? O3B ADP 2001 A 1 
HETATM 5 P PA ADP . . . E 4 -9.492 25.355 79.86 1 31.65 ? PA ADP 2001 A 1 
HETATM 6 O O1A ADP . . . E 4 -9.338 25.363 78.374 1 30.48 ? O1A ADP 2001 A 1 
HETATM 7 O O2A ADP . . . E 4 -10.643 26.217 80.297 1 29.26 ? O2A ADP 2001 A 1 
HETATM 8 O O3A ADP . . . E 4 -9.568 23.87 80.508 1 32.35 ? O3A ADP 2001 A 1 
HETATM 9 O O5' ADP . . . E 4 -8.152 25.875 80.518 1 31.77 ? O5' ADP 2001 A 1 
HETATM 10 C C5' ADP . . . E 4 -7.997 25.879 81.925 1 32 ? C5' ADP 2001 A 1 
HETATM 11 C C4' ADP . . . E 4 -7.21 27.12 82.337 1 31.28 ? C4' ADP 2001 A 1 
HETATM 12 O O4' ADP . . . E 4 -5.956 27.18 81.667 1 29.26 ? O4' ADP 2001 A 1 
HETATM 13 C C3' ADP . . . E 4 -7.926 28.411 81.989 1 32.01 ? C3' ADP 2001 A 1 
HETATM 14 O O3' ADP . . . E 4 -8.955 28.733 82.907 1 33.25 ? O3' ADP 2001 A 1 
HETATM 15 C C2' ADP . . . E 4 -6.772 29.374 81.92 1 30.14 ? C2' ADP 2001 A 1 
HETATM 16 O O2' ADP . . . E 4 -6.406 29.72 83.239 1 34.66 ? O2' ADP 2001 A 1 
HETATM 17 C C1' ADP . . . E 4 -5.671 28.537 81.32 1 30.76 ? C1' ADP 2001 A 1 
HETATM 18 N N9 ADP . . . E 4 -5.607 28.641 79.863 1 30.69 ? N9 ADP 2001 A 1 
HETATM 19 C C8 ADP . . . E 4 -6.342 27.878 78.987 1 31.98 ? C8 ADP 2001 A 1 
HETATM 20 N N7 ADP . . . E 4 -6.041 28.235 77.706 1 30.56 ? N7 ADP 2001 A 1 
HETATM 21 C C5 ADP . . . E 4 -5.126 29.207 77.787 1 28.06 ? C5 ADP 2001 A 1 
HETATM 22 C C6 ADP . . . E 4 -4.499 29.902 76.794 1 30.48 ? C6 ADP 2001 A 1 
HETATM 23 N N6 ADP . . . E 4 -4.7 29.586 75.497 1 27.18 ? N6 ADP 2001 A 1 
HETATM 24 N N1 ADP . . . E 4 -3.609 30.863 77.166 1 30.36 ? N1 ADP 2001 A 1 
HETATM 25 C C2 ADP . . . E 4 -3.341 31.141 78.492 1 32.4 ? C2 ADP 2001 A 1 
HETATM 26 N N3 ADP . . . E 4 -3.97 30.432 79.483 1 31.4 ? N3 ADP 2001 A 1 
HETATM 27 C C4 ADP . . . E 4 -4.835 29.467 79.126 1 29.64 ? C4 ADP 2001 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           27 
#