data_7P2R
#
_model_server_result.job_id            bnp-ggjaKPoxw6_kHJIUvA 
_model_server_result.datetime_utc      '2024-11-29 17:49:58' 
_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          7p2r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":402}' 
#
_entry.id    7P2R 
#
_exptl.entry_id    7P2R 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              636.659 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'methyl 6-[4-[[N-[2-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl]carbamimidoyl]amino]butylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate' 
_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          102.79 
_cell.angle_gamma         90 
_cell.entry_id            7P2R 
_cell.length_a            41.797 
_cell.length_b            118.687 
_cell.length_c            72.052 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7P2R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_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,D,E,F,G 
_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 C N N 
? 2 E N N 
#
_chem_comp.formula           'C29 H36 N10 O7' 
_chem_comp.formula_weight    636.659 
_chem_comp.id                4R7 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'methyl 6-[4-[[N-[2-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl]carbamimidoyl]amino]butylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate' 
_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
O5 C20 4R7 sing 1 n n 
O2 C11 4R7 sing 2 n n 
O2 C12 4R7 sing 3 n n 
O6 C21 4R7 sing 4 n n 
C11 O3 4R7 doub 5 n n 
C11 C1 4R7 sing 6 n n 
C6 C1 4R7 sing 7 n y 
C6 C5 4R7 doub 8 n y 
O4 C13 4R7 doub 9 n n 
C10 C5 4R7 sing 10 n y 
C10 C9 4R7 doub 11 n y 
C20 C21 4R7 sing 12 n n 
C20 C19 4R7 sing 13 n n 
C1 C2 4R7 doub 14 n y 
C5 C4 4R7 sing 15 n y 
C9 C8 4R7 sing 16 n y 
C21 C22 4R7 sing 17 n n 
C2 C3 4R7 sing 18 n y 
C4 C3 4R7 doub 19 n y 
C4 C7 4R7 sing 20 n y 
C13 N1 4R7 sing 21 n n 
C13 N2 4R7 sing 22 n n 
C8 C7 4R7 doub 23 n y 
C8 N1 4R7 sing 24 n n 
C3 O1 4R7 sing 25 n n 
C15 C16 4R7 sing 26 n n 
C15 C14 4R7 sing 27 n n 
C19 C18 4R7 sing 28 n n 
C19 O7 4R7 sing 29 n n 
C18 C29 4R7 sing 30 n n 
N2 C14 4R7 sing 31 n n 
C29 N4 4R7 sing 32 n n 
N3 C17 4R7 sing 33 n n 
N3 C28 4R7 sing 34 n n 
C22 O7 4R7 sing 35 n n 
C22 N6 4R7 sing 36 n n 
N4 C17 4R7 sing 37 n n 
C16 C28 4R7 sing 38 n n 
C17 N5 4R7 doub 39 n n 
N6 C23 4R7 sing 40 n y 
N6 C27 4R7 sing 41 n y 
C23 N7 4R7 doub 42 n y 
C27 N10 4R7 doub 43 n y 
C27 C24 4R7 sing 44 n y 
N10 C26 4R7 sing 45 n y 
N7 C24 4R7 sing 46 n y 
C24 C25 4R7 doub 47 n y 
C26 N9 4R7 doub 48 n y 
C25 N9 4R7 sing 49 n y 
C25 N8 4R7 sing 50 n n 
C2 H1 4R7 sing 51 n n 
C6 H2 4R7 sing 52 n n 
C10 H3 4R7 sing 53 n n 
C12 H4 4R7 sing 54 n n 
C12 H5 4R7 sing 55 n n 
C12 H6 4R7 sing 56 n n 
C15 H7 4R7 sing 57 n n 
C15 H8 4R7 sing 58 n n 
C16 H9 4R7 sing 59 n n 
C16 H10 4R7 sing 60 n n 
C18 H11 4R7 sing 61 n n 
C18 H12 4R7 sing 62 n n 
C20 H13 4R7 sing 63 n n 
C22 H14 4R7 sing 64 n n 
C26 H15 4R7 sing 65 n n 
C29 H16 4R7 sing 66 n n 
C29 H17 4R7 sing 67 n n 
C14 H18 4R7 sing 68 n n 
C14 H19 4R7 sing 69 n n 
C19 H20 4R7 sing 70 n n 
C21 H21 4R7 sing 71 n n 
C23 H22 4R7 sing 72 n n 
C28 H23 4R7 sing 73 n n 
C28 H24 4R7 sing 74 n n 
C7 H25 4R7 sing 75 n n 
C9 H26 4R7 sing 76 n n 
N1 H27 4R7 sing 77 n n 
N2 H28 4R7 sing 78 n n 
N3 H29 4R7 sing 79 n n 
N4 H30 4R7 sing 80 n n 
N5 H31 4R7 sing 81 n n 
N8 H32 4R7 sing 82 n n 
N8 H33 4R7 sing 83 n n 
O1 H34 4R7 sing 84 n n 
O5 H35 4R7 sing 85 n n 
O6 H36 4R7 sing 86 n n 
#
_atom_sites.entry_id                     7P2R 
_atom_sites.fract_transf_matrix[1][1]    0.023925 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005433 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008426 
_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]    0.014232 
_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 4R7 A 1 401 401 4R7 980 . 
D 3 SAH B 1 401 401 SAH SAH . 
E 2 4R7 B 1 402 401 4R7 980 . 
F 4 HOH A 1 501 4 HOH HOH . 
F 4 HOH A 2 502 34 HOH HOH . 
F 4 HOH A 3 503 7 HOH HOH . 
F 4 HOH A 4 504 28 HOH HOH . 
F 4 HOH A 5 505 39 HOH HOH . 
F 4 HOH A 6 506 38 HOH HOH . 
F 4 HOH A 7 507 37 HOH HOH . 
F 4 HOH A 8 508 10 HOH HOH . 
F 4 HOH A 9 509 33 HOH HOH . 
F 4 HOH A 10 510 23 HOH HOH . 
F 4 HOH A 11 511 32 HOH HOH . 
F 4 HOH A 12 512 27 HOH HOH . 
F 4 HOH A 13 513 21 HOH HOH . 
F 4 HOH A 14 514 31 HOH HOH . 
F 4 HOH A 15 515 22 HOH HOH . 
F 4 HOH A 16 516 35 HOH HOH . 
F 4 HOH A 17 517 20 HOH HOH . 
F 4 HOH A 18 518 14 HOH HOH . 
F 4 HOH A 19 519 36 HOH HOH . 
G 4 HOH B 1 501 25 HOH HOH . 
G 4 HOH B 2 502 3 HOH HOH . 
G 4 HOH B 3 503 8 HOH HOH . 
G 4 HOH B 4 504 30 HOH HOH . 
G 4 HOH B 5 505 5 HOH HOH . 
G 4 HOH B 6 506 19 HOH HOH . 
G 4 HOH B 7 507 16 HOH HOH . 
G 4 HOH B 8 508 6 HOH HOH . 
G 4 HOH B 9 509 2 HOH HOH . 
G 4 HOH B 10 510 17 HOH HOH . 
G 4 HOH B 11 511 13 HOH HOH . 
G 4 HOH B 12 512 26 HOH HOH . 
G 4 HOH B 13 513 1 HOH HOH . 
G 4 HOH B 14 514 15 HOH HOH . 
G 4 HOH B 15 515 9 HOH HOH . 
G 4 HOH B 16 516 29 HOH HOH . 
G 4 HOH B 17 517 24 HOH HOH . 
G 4 HOH B 18 518 40 HOH HOH . 
G 4 HOH B 19 519 18 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 C1 4R7 . B . E 2 6.576 8.652 -1.952 0.6 76.14 ? C1 4R7 402 B 1 
HETATM 2 C C2 4R7 . B . E 2 6.285 9.741 -1.128 0.6 74.66 ? C2 4R7 402 B 1 
HETATM 3 C C3 4R7 . B . E 2 6.208 9.581 0.234 0.6 70.97 ? C3 4R7 402 B 1 
HETATM 4 C C5 4R7 . B . E 2 6.713 7.204 -0.011 0.6 71.35 ? C5 4R7 402 B 1 
HETATM 5 C C6 4R7 . B . E 2 6.784 7.411 -1.405 0.6 75.95 ? C6 4R7 402 B 1 
HETATM 6 N N7 4R7 . B . E 2 -4.131 1.99 10.598 0.6 79.33 ? N7 4R7 402 B 1 
HETATM 7 C C8 4R7 . B . E 2 6.597 6.852 2.77 0.6 60.73 ? C8 4R7 402 B 1 
HETATM 8 N N9 4R7 . B . E 2 -6.226 -0.849 11.737 0.6 82.29 ? N9 4R7 402 B 1 
HETATM 9 C C10 4R7 . B . E 2 6.922 5.935 0.576 0.6 63.91 ? C10 4R7 402 B 1 
HETATM 10 C C12 4R7 . B . E 2 6.295 7.735 -5.5 0.6 69.63 ? C12 4R7 402 B 1 
HETATM 11 C C13 4R7 . B . E 2 5.241 6.319 4.702 0.6 56.15 ? C13 4R7 402 B 1 
HETATM 12 C C15 4R7 . B . E 2 5.745 6.211 8.368 0.6 41.57 ? C15 4R7 402 B 1 
HETATM 13 C C16 4R7 . B . E 2 4.262 5.827 8.237 0.6 42.12 ? C16 4R7 402 B 1 
HETATM 14 C C17 4R7 . B . E 2 3.312 3.323 9.967 0.6 39.38 ? C17 4R7 402 B 1 
HETATM 15 C C18 4R7 . B . E 2 1.095 1.049 9.435 0.6 54.46 ? C18 4R7 402 B 1 
HETATM 16 C C20 4R7 . B . E 2 -0.059 -0.273 7.535 0.6 64.75 ? C20 4R7 402 B 1 
HETATM 17 C C22 4R7 . B . E 2 -1.915 -0.409 8.968 0.6 71.67 ? C22 4R7 402 B 1 
HETATM 18 C C24 4R7 . B . E 2 -4.739 0.782 10.895 0.6 80.36 ? C24 4R7 402 B 1 
HETATM 19 C C26 4R7 . B . E 2 -5.444 -1.759 11.154 0.6 66.03 ? C26 4R7 402 B 1 
HETATM 20 C C27 4R7 . B . E 2 -4.032 -0.274 10.348 0.6 82.95 ? C27 4R7 402 B 1 
HETATM 21 C C29 4R7 . B . E 2 2.606 0.959 9.549 0.6 47.91 ? C29 4R7 402 B 1 
HETATM 22 C C11 4R7 . B . E 2 6.661 8.807 -3.429 0.6 79.32 ? C11 4R7 402 B 1 
HETATM 23 C C14 4R7 . B . E 2 6.322 6.218 6.966 0.6 41.77 ? C14 4R7 402 B 1 
HETATM 24 C C19 4R7 . B . E 2 0.422 -0.232 8.984 0.6 57.61 ? C19 4R7 402 B 1 
HETATM 25 C C21 4R7 . B . E 2 -1.493 0.241 7.656 0.6 68.84 ? C21 4R7 402 B 1 
HETATM 26 C C23 4R7 . B . E 2 -3.085 1.642 9.885 0.6 88.43 ? C23 4R7 402 B 1 
HETATM 27 C C25 4R7 . B . E 2 -5.899 0.456 11.628 0.6 71.86 ? C25 4R7 402 B 1 
HETATM 28 C C28 4R7 . B . E 2 3.425 5.716 9.491 0.6 45.25 ? C28 4R7 402 B 1 
HETATM 29 C C4 4R7 . B . E 2 6.42 8.311 0.834 0.6 68.81 ? C4 4R7 402 B 1 
HETATM 30 C C7 4R7 . B . E 2 6.35 8.097 2.232 0.6 65.32 ? C7 4R7 402 B 1 
HETATM 31 C C9 4R7 . B . E 2 6.846 5.771 1.926 0.6 60.69 ? C9 4R7 402 B 1 
HETATM 32 N N1 4R7 . B . E 2 6.458 6.627 4.156 0.6 55.07 ? N1 4R7 402 B 1 
HETATM 33 N N10 4R7 . B . E 2 -4.331 -1.571 10.44 0.6 69.33 ? N10 4R7 402 B 1 
HETATM 34 N N2 4R7 . B . E 2 5.211 6.116 6.034 0.6 54.14 ? N2 4R7 402 B 1 
HETATM 35 N N3 4R7 . B . E 2 2.705 4.45 9.549 0.6 43.78 ? N3 4R7 402 B 1 
HETATM 36 N N4 4R7 . B . E 2 3.259 2.21 9.185 0.6 50.32 ? N4 4R7 402 B 1 
HETATM 37 N N5 4R7 . B . E 2 3.999 3.25 11.049 0.6 32.68 ? N5 4R7 402 B 1 
HETATM 38 N N6 4R7 . B . E 2 -2.966 0.295 9.691 0.6 256.69 ? N6 4R7 402 B 1 
HETATM 39 N N8 4R7 . B . E 2 -6.686 1.361 12.216 0.6 62.14 ? N8 4R7 402 B 1 
HETATM 40 O O1 4R7 . B . E 2 5.929 10.609 1.085 0.6 70.06 ? O1 4R7 402 B 1 
HETATM 41 O O2 4R7 . B . E 2 6.05 7.811 -4.076 0.6 77.68 ? O2 4R7 402 B 1 
HETATM 42 O O3 4R7 . B . E 2 7.241 9.703 -3.988 0.6 83.07 ? O3 4R7 402 B 1 
HETATM 43 O O4 4R7 . B . E 2 4.225 6.219 4.02 0.6 57.73 ? O4 4R7 402 B 1 
HETATM 44 O O5 4R7 . B . E 2 -0.003 -1.589 6.994 0.6 49.72 ? O5 4R7 402 B 1 
HETATM 45 O O6 4R7 . B . E 2 -2.326 -0.243 6.614 0.6 57.22 ? O6 4R7 402 B 1 
HETATM 46 O O7 4R7 . B . E 2 -0.761 -0.437 9.785 0.6 60.46 ? O7 4R7 402 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           447 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           46 
#