data_6AVB
#
_model_server_result.job_id            v1pAkB9ZG8i-nQKpNNL7iw 
_model_server_result.datetime_utc      '2024-11-14 23:49:20' 
_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          6avb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":801}' 
#
_entry.id    6AVB 
#
_exptl.entry_id    6AVB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            6AVB 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6AVB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 D N N 
? 2 E N N 
? 2 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
covale ? covale1 A C VAL 45 C VAL 43 1_555 A N SME 46 C SME 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale2 A C SME 46 C SME 44 1_555 A N VAL 47 C VAL 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale3 A C GLY 48 C GLY 46 1_555 A N SME 49 C SME 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 A C SME 49 C SME 47 1_555 A N GLY 50 C GLY 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale5 A C GLU 74 C GLU 72 1_555 A N HIC 75 C HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale6 A C HIC 75 C HIC 73 1_555 A N GLY 76 C GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale7 B C VAL 45 A VAL 43 1_555 B N SME 46 A SME 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale8 B C SME 46 A SME 44 1_555 B N VAL 47 A VAL 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale9 B C GLY 48 A GLY 46 1_555 B N SME 49 A SME 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale10 B C SME 49 A SME 47 1_555 B N GLY 50 A GLY 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale11 B C GLU 74 A GLU 72 1_555 B N HIC 75 A HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale12 B C HIC 75 A HIC 73 1_555 B N GLY 76 A GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale13 C C VAL 45 B VAL 43 1_555 C N SME 46 B SME 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale14 C C SME 46 B SME 44 1_555 C N VAL 47 B VAL 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale15 C C GLY 48 B GLY 46 1_555 C N SME 49 B SME 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale16 C C SME 49 B SME 47 1_555 C N GLY 50 B GLY 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale17 C C GLU 74 B GLU 72 1_555 C N HIC 75 B HIC 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale18 C C HIC 75 B HIC 73 1_555 C N GLY 76 B GLY 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
#
_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     ? 
#
_atom_sites.entry_id                     6AVB 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
D 2 ADP C 1 801 801 ADP ADP . 
E 2 ADP A 1 801 801 ADP ADP . 
F 2 ADP B 1 801 801 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 . . . D 2 4.166 -16.255 12.468 1 73.7 ? PB ADP 801 C 1 
HETATM 2 O O1B ADP . . . D 2 2.942 -16.712 11.723 1 74.07 ? O1B ADP 801 C 1 
HETATM 3 O O2B ADP . . . D 2 5.168 -17.355 12.688 1 74.87 ? O2B ADP 801 C 1 
HETATM 4 O O3B ADP . . . D 2 4.746 -14.939 12.016 1 72.76 ? O3B ADP 801 C 1 
HETATM 5 P PA ADP . . . D 2 3.393 -17.311 14.822 1 74.77 ? PA ADP 801 C 1 
HETATM 6 O O1A ADP . . . D 2 2.719 -18.346 13.967 1 75.85 ? O1A ADP 801 C 1 
HETATM 7 O O2A ADP . . . D 2 4.716 -17.63 15.458 1 75.06 ? O2A ADP 801 C 1 
HETATM 8 O O3A ADP . . . D 2 3.63 -15.995 13.951 1 74.2 ? O3A ADP 801 C 1 
HETATM 9 O O5' ADP . . . D 2 2.362 -16.876 15.964 1 74.41 ? O5' ADP 801 C 1 
HETATM 10 C C5' ADP . . . D 2 1.009 -17.298 15.888 1 74.91 ? C5' ADP 801 C 1 
HETATM 11 C C4' ADP . . . D 2 0.172 -16.384 16.771 1 74.59 ? C4' ADP 801 C 1 
HETATM 12 O O4' ADP . . . D 2 -1.208 -16.528 16.472 1 75.12 ? O4' ADP 801 C 1 
HETATM 13 C C3' ADP . . . D 2 0.283 -16.69 18.244 1 74.78 ? C3' ADP 801 C 1 
HETATM 14 O O3' ADP . . . D 2 1.289 -15.886 18.845 1 74.01 ? O3' ADP 801 C 1 
HETATM 15 C C2' ADP . . . D 2 -1.066 -16.306 18.795 1 75.11 ? C2' ADP 801 C 1 
HETATM 16 O O2' ADP . . . D 2 -1.007 -14.953 19.229 1 74.51 ? O2' ADP 801 C 1 
HETATM 17 C C1' ADP . . . D 2 -2.016 -16.367 17.629 1 75.26 ? C1' ADP 801 C 1 
HETATM 18 N N9 ADP . . . D 2 -2.842 -17.581 17.742 1 76.25 ? N9 ADP 801 C 1 
HETATM 19 C C8 ADP . . . D 2 -2.35 -18.824 17.837 1 77.17 ? C8 ADP 801 C 1 
HETATM 20 N N7 ADP . . . D 2 -3.338 -19.745 17.917 1 78.03 ? N7 ADP 801 C 1 
HETATM 21 C C5 ADP . . . D 2 -4.497 -19.074 17.871 1 77.6 ? C5 ADP 801 C 1 
HETATM 22 C C6 ADP . . . D 2 -5.919 -19.44 17.919 1 78.07 ? C6 ADP 801 C 1 
HETATM 23 N N6 ADP . . . D 2 -6.291 -20.733 18.027 1 79.22 ? N6 ADP 801 C 1 
HETATM 24 N N1 ADP . . . D 2 -6.825 -18.453 17.849 1 77.45 ? N1 ADP 801 C 1 
HETATM 25 C C2 ADP . . . D 2 -6.45 -17.175 17.742 1 76.48 ? C2 ADP 801 C 1 
HETATM 26 N N3 ADP . . . D 2 -5.176 -16.767 17.697 1 76 ? N3 ADP 801 C 1 
HETATM 27 C C4 ADP . . . D 2 -4.168 -17.653 17.762 1 76.48 ? C4 ADP 801 C 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           212 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           27 
#