data_1NLK
#
_model_server_result.job_id            f2aWMg2WAjT-vWI7C2m6cA 
_model_server_result.datetime_utc      '2024-10-16 16:21:51' 
_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          1nlk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1}' 
#
_entry.id    1NLK 
#
_exptl.entry_id    1NLK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    2 
_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         90 
_cell.entry_id            1NLK 
_cell.length_a            63.5 
_cell.length_b            63.5 
_cell.length_c            159.5 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1NLK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
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 1 1 
A,B,C,D,E,F 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 D N N 
? 3 F 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
metalc ? metalc1 D O2A ADP . R ADP 1 1_555 C MG MG . R MG 146 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.714 ? 
metalc ? metalc2 F O3B ADP . L ADP 1 1_555 E MG MG . L MG 146 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.822 ? 
metalc ? metalc3 F O3A ADP . L ADP 1 1_555 E MG MG . L MG 146 1_555 ? D ? ? ? ? ? ? ? ? ? ? 2.888 ? 
metalc ? metalc4 F O1A ADP . L ADP 1 1_555 E MG MG . L MG 146 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc5 F O3A ADP . L ADP 1 1_555 E MG MG . L MG 146 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.966 ? 
#
_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                     1NLK 
_atom_sites.fract_transf_matrix[1][1]    0.015748 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015748 
_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]    0.00627 
_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 2 MG R 1 146 2 MG MG . 
D 3 ADP R 1 1 1 ADP ADP . 
E 2 MG L 1 146 2 MG MG . 
F 3 ADP L 1 1 1 ADP ADP . 
#
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 . B . F 3 31.26 58.097 12.036 0.53 41.48 ? PB ADP 1 L 1 
HETATM 2 P PB ADP . D . F 3 31.39 55.131 11.643 0.53 39.93 ? PB ADP 1 L 1 
HETATM 3 O O1B ADP . B . F 3 30.017 58.849 12.28 0.53 34.28 ? O1B ADP 1 L 1 
HETATM 4 O O1B ADP . D . F 3 30.161 55.859 11.983 0.53 34.32 ? O1B ADP 1 L 1 
HETATM 5 O O2B ADP . B . F 3 31.084 56.653 11.772 0.53 36.26 ? O2B ADP 1 L 1 
HETATM 6 O O2B ADP . D . F 3 31.399 53.653 11.832 0.53 36.51 ? O2B ADP 1 L 1 
HETATM 7 O O3B ADP . B . F 3 31.651 58.632 10.578 0.53 37.55 ? O3B ADP 1 L 1 
HETATM 8 O O3B ADP . D . F 3 31.35 55.211 10.031 0.53 41.05 ? O3B ADP 1 L 1 
HETATM 9 P PA ADP . B . F 3 33.381 57.823 13.735 0.53 34.64 ? PA ADP 1 L 1 
HETATM 10 P PA ADP . D . F 3 33.405 56.022 13.197 0.53 34.14 ? PA ADP 1 L 1 
HETATM 11 O O1A ADP . B . F 3 34.732 57.588 13.146 0.53 34.35 ? O1A ADP 1 L 1 
HETATM 12 O O1A ADP . D . F 3 34.861 55.707 13.147 0.53 35.46 ? O1A ADP 1 L 1 
HETATM 13 O O2A ADP . B . F 3 33.424 58.363 15.118 0.53 32.14 ? O2A ADP 1 L 1 
HETATM 14 O O2A ADP . D . F 3 33.085 57.27 13.94 0.53 32.21 ? O2A ADP 1 L 1 
HETATM 15 O O3A ADP . B . F 3 32.426 58.528 12.844 0.53 36.63 ? O3A ADP 1 L 1 
HETATM 16 O O3A ADP . D . F 3 32.675 55.832 11.912 0.53 32.9 ? O3A ADP 1 L 1 
HETATM 17 O O5' ADP . B . F 3 32.866 56.298 13.933 0.53 29.16 ? O5' ADP 1 L 1 
HETATM 18 O O5' ADP . D . F 3 32.942 54.823 14.134 0.53 29.43 ? O5' ADP 1 L 1 
HETATM 19 C C5' ADP . B . F 3 32.806 55.683 15.211 0.53 22.83 ? C5' ADP 1 L 1 
HETATM 20 C C5' ADP . D . F 3 32.698 55.031 15.511 0.53 23.13 ? C5' ADP 1 L 1 
HETATM 21 C C4' ADP . B . F 3 31.455 55.081 15.559 0.53 21.34 ? C4' ADP 1 L 1 
HETATM 22 C C4' ADP . D . F 3 31.27 54.707 15.913 0.53 20.55 ? C4' ADP 1 L 1 
HETATM 23 O O4' ADP . B . F 3 31.527 54.838 16.984 0.53 19.09 ? O4' ADP 1 L 1 
HETATM 24 O O4' ADP . D . F 3 31.282 54.661 17.349 0.53 22.27 ? O4' ADP 1 L 1 
HETATM 25 C C3' ADP . B . F 3 30.269 56.044 15.405 0.53 26.94 ? C3' ADP 1 L 1 
HETATM 26 C C3' ADP . D . F 3 30.212 55.755 15.517 0.53 20 ? C3' ADP 1 L 1 
HETATM 27 O O3' ADP . B . F 3 29.598 55.995 14.134 0.53 16.27 ? O3' ADP 1 L 1 
HETATM 28 O O3' ADP . D . F 3 29.46 55.405 14.353 0.53 17.82 ? O3' ADP 1 L 1 
HETATM 29 C C2' ADP . B . F 3 29.375 55.752 16.612 0.53 14.9 ? C2' ADP 1 L 1 
HETATM 30 C C2' ADP . D . F 3 29.281 55.761 16.722 0.53 18.23 ? C2' ADP 1 L 1 
HETATM 31 O O2' ADP . B . F 3 28.644 54.515 16.496 0.53 19.82 ? O2' ADP 1 L 1 
HETATM 32 O O2' ADP . D . F 3 28.395 54.634 16.694 0.53 19.46 ? O2' ADP 1 L 1 
HETATM 33 C C1' ADP . B . F 3 30.46 55.533 17.662 0.53 17.26 ? C1' ADP 1 L 1 
HETATM 34 C C1' ADP . D . F 3 30.268 55.531 17.844 0.53 18.33 ? C1' ADP 1 L 1 
HETATM 35 N N9 ADP . B . F 3 30.905 56.777 18.327 0.33 15.87 ? N9 ADP 1 L 1 
HETATM 36 N N9 ADP . D . F 3 30.814 56.763 18.433 0.33 16.38 ? N9 ADP 1 L 1 
HETATM 37 C C8 ADP . B . F 3 31.733 57.767 17.872 0.33 15.2 ? C8 ADP 1 L 1 
HETATM 38 C C8 ADP . D . F 3 31.651 57.715 17.917 0.33 10.91 ? C8 ADP 1 L 1 
HETATM 39 N N7 ADP . B . F 3 31.853 58.775 18.681 0.33 12.93 ? N7 ADP 1 L 1 
HETATM 40 N N7 ADP . D . F 3 31.824 58.739 18.705 0.33 11.28 ? N7 ADP 1 L 1 
HETATM 41 C C5 ADP . B . F 3 31.052 58.428 19.757 0.33 16.21 ? C5 ADP 1 L 1 
HETATM 42 C C5 ADP . D . F 3 31.038 58.44 19.811 0.33 14.83 ? C5 ADP 1 L 1 
HETATM 43 C C6 ADP . B . F 3 30.784 59.075 20.965 0.33 13.33 ? C6 ADP 1 L 1 
HETATM 44 C C6 ADP . D . F 3 30.802 59.117 21.011 0.33 14.76 ? C6 ADP 1 L 1 
HETATM 45 N N6 ADP . B . F 3 31.342 60.245 21.273 0.33 20.4 ? N6 ADP 1 L 1 
HETATM 46 N N6 ADP . D . F 3 31.376 60.284 21.298 0.33 16.44 ? N6 ADP 1 L 1 
HETATM 47 N N1 ADP . B . F 3 29.951 58.463 21.818 0.33 18.91 ? N1 ADP 1 L 1 
HETATM 48 N N1 ADP . D . F 3 29.973 58.536 21.891 0.33 15.2 ? N1 ADP 1 L 1 
HETATM 49 C C2 ADP . B . F 3 29.411 57.298 21.477 0.33 18.14 ? C2 ADP 1 L 1 
HETATM 50 C C2 ADP . D . F 3 29.409 57.373 21.586 0.33 15.34 ? C2 ADP 1 L 1 
HETATM 51 N N3 ADP . B . F 3 29.583 56.585 20.374 0.33 21.13 ? N3 ADP 1 L 1 
HETATM 52 N N3 ADP . D . F 3 29.544 56.641 20.496 0.33 17.71 ? N3 ADP 1 L 1 
HETATM 53 C C4 ADP . B . F 3 30.448 57.221 19.546 0.33 13.62 ? C4 ADP 1 L 1 
HETATM 54 C C4 ADP . D . F 3 30.406 57.244 19.643 0.33 14.85 ? C4 ADP 1 L 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           261 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           54 
#