data_7LNG
#
_model_server_result.job_id            9rXXLxkMsQFVnFOibJa5Lw 
_model_server_result.datetime_utc      '2024-11-24 13:43:52' 
_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          7lng 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":105}' 
#
_entry.id    7LNG 
#
_exptl.entry_id    7LNG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              332.187 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-azanyl-9-[(2~{R},3~{R},4~{S})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]-1~{H}-purin-6-one 
_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         120 
_cell.entry_id            7LNG 
_cell.length_a            45.165 
_cell.length_b            45.165 
_cell.length_c            82.831 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7LNG 
_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 
_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,H,I,J,K,L,M,N 
_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
? 4 E N N 
? 4 N 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 P A 5 A A 5 1_555 D O3' LCG . A LCG 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.646 ? 
covale ? covale2 A O3' C 13 A C 13 1_555 E P TG . A TG 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.634 ? 
covale ? covale3 C O3' LCC . A LCC 101 1_555 D P LCG . A LCG 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? 
covale ? covale4 C P LCC . A LCC 101 1_555 K O3' LCC . B LCC 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.643 ? 
covale ? covale5 F O3' LKC . A LKC 104 1_555 G P LCC . A LCC 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.612 ? 
covale ? covale6 G O3' LCC . A LCC 105 1_555 H P LCC . A LCC 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.65 ? 
covale ? covale7 H O3' LCC . A LCC 106 1_555 M P LCG . B LCG 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.684 ? 
covale ? covale8 B P A 5 B A 5 1_555 M O3' LCG . B LCG 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.62 ? 
covale ? covale9 B O3' C 13 B C 13 1_555 N P TG . B TG 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? 
covale ? covale10 J O3' LKC . B LKC 101 1_555 K P LCC . B LCC 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.64 ? 
hydrog WATSON-CRICK hydrog1 A N1 A 5 A A 5 1_555 B N3 U 12 B U 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 A N6 A 5 A A 5 1_555 B O4 U 12 B U 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 A N3 C 6 A C 6 1_555 B N1 G 11 B G 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 A N4 C 6 A C 6 1_555 B O6 G 11 B G 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 A O2 C 6 A C 6 1_555 B N2 G 11 B G 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 A N3 U 7 A U 7 1_555 B N1 A 10 B A 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 A O4 U 7 A U 7 1_555 B N6 A 10 B A 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 A N3 U 8 A U 8 1_555 B N1 A 9 B A 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 A O4 U 8 A U 8 1_555 B N6 A 9 B A 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 A N1 A 9 A A 9 1_555 B N3 U 8 B U 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 A N6 A 9 A A 9 1_555 B O4 U 8 B U 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 A N1 A 10 A A 10 1_555 B N3 U 7 B U 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 A N6 A 10 A A 10 1_555 B O4 U 7 B U 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 A N1 G 11 A G 11 1_555 B N3 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 A N2 G 11 A G 11 1_555 B O2 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 A O6 G 11 A G 11 1_555 B N4 C 6 B C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 A N3 U 12 A U 12 1_555 B N1 A 5 B A 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 A O4 U 12 A U 12 1_555 B N6 A 5 B A 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C9 H11 N5 O7 P' 
_chem_comp.formula_weight    332.187 
_chem_comp.id                TG 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              2-azanyl-9-[(2~{R},3~{R},4~{S})-3-oxidanyl-4-[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxy-oxolan-2-yl]-1~{H}-purin-6-one 
_chem_comp.type              'rna 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
N2 C2 TG sing 318 n n 
N1 C2 TG sing 319 n n 
N1 C6 TG sing 320 n n 
O6 C6 TG doub 321 n n 
C2 N3 TG doub 322 n n 
C6 C5 TG sing 323 n n 
N3 C4 TG sing 324 n n 
C5 C4 TG doub 325 n y 
C5 N7 TG sing 326 n y 
C4 N9 TG sing 327 n y 
N7 C8 TG doub 328 n y 
N9 C8 TG sing 329 n y 
N9 C1' TG sing 330 n n 
C1' O4' TG sing 331 n n 
C1' C2' TG sing 332 n n 
O4' C4' TG sing 333 n n 
C2' O2' TG sing 334 n n 
C2' C3' TG sing 335 n n 
C4' C3' TG sing 336 n n 
C3' O3' TG sing 337 n n 
O3' P TG sing 338 n n 
P O1P TG doub 339 n n 
P O2P TG doub 340 n n 
C1' H1 TG sing 341 n n 
C2' H2 TG sing 342 n n 
C3' H3 TG sing 343 n n 
C4' H4 TG sing 344 n n 
C4' H5 TG sing 345 n n 
C8 H6 TG sing 346 n n 
N1 H7 TG sing 347 n n 
N2 H8 TG sing 348 n n 
N2 H9 TG sing 349 n n 
O2' H11 TG sing 350 n n 
P O3P TG sing 351 n n 
O3P H10 TG sing 352 n n 
#
_atom_sites.entry_id                     7LNG 
_atom_sites.fract_transf_matrix[1][1]    0.022141 
_atom_sites.fract_transf_matrix[1][2]    0.012783 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.025566 
_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]    0.012073 
_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 LCC A 1 101 3 LCC LCC . 
D 3 LCG A 1 102 4 LCG LCG . 
E 4 TG A 1 103 14 TG TG . 
F 5 LKC A 1 104 1 LKC LCC . 
G 2 LCC A 1 105 2 LCC LCC . 
H 2 LCC A 1 106 3 LCC LCC . 
I 6 GP3 A 1 107 101 GP3 GP3 . 
J 5 LKC B 1 101 1 LKC LCC . 
K 2 LCC B 1 102 2 LCC LCC . 
L 6 GP3 B 1 103 101 GP3 GP3 . 
M 3 LCG B 1 104 4 LCG LCG . 
N 4 TG B 1 105 14 TG TG . 
#
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' TG . . . N 4 21.064 6.267 36.164 1 46.87 0 C1' TG 105 B 1 
HETATM 2 C C2 TG . . . N 4 18.583 9.693 34.689 1 43.44 0 C2 TG 105 B 1 
HETATM 3 C C2' TG . . . N 4 21.457 5.948 37.588 1 46.86 0 C2' TG 105 B 1 
HETATM 4 C C3' TG . . . N 4 21.807 4.478 37.5 1 47.03 0 C3' TG 105 B 1 
HETATM 5 C C4 TG . . . N 4 18.979 7.55 35.498 1 41.24 0 C4 TG 105 B 1 
HETATM 6 C C4' TG . . . N 4 22.419 4.391 36.142 1 45.05 0 C4' TG 105 B 1 
HETATM 7 C C5 TG . . . N 4 17.642 7.299 35.474 1 38.54 0 C5 TG 105 B 1 
HETATM 8 C C6 TG . . . N 4 16.73 8.202 35.084 1 38.92 0 C6 TG 105 B 1 
HETATM 9 C C8 TG . . . N 4 18.643 5.53 36.245 1 42.65 0 C8 TG 105 B 1 
HETATM 10 N N1 TG . . . N 4 17.197 9.411 34.642 1 35.52 0 N1 TG 105 B 1 
HETATM 11 N N2 TG . . . N 4 18.982 10.896 34.297 1 39.06 0 N2 TG 105 B 1 
HETATM 12 N N3 TG . . . N 4 19.458 8.758 35.114 1 41.74 0 N3 TG 105 B 1 
HETATM 13 N N7 TG . . . N 4 17.455 6.071 35.93 1 35.29 0 N7 TG 105 B 1 
HETATM 14 N N9 TG . . . N 4 19.594 6.453 35.976 1 42.71 0 N9 TG 105 B 1 
HETATM 15 O O1P TG . . . N 4 22.001 1.684 38.251 1 46.97 0 O1P TG 105 B 1 
HETATM 16 O O2' TG . . . N 4 22.643 6.662 37.994 1 48.61 0 O2' TG 105 B 1 
HETATM 17 O O2P TG . . . N 4 19.451 1.65 38.464 1 43.36 0 O2P TG 105 B 1 
HETATM 18 O O3' TG . . . N 4 20.612 3.71 37.61 1 45.13 0 O3' TG 105 B 1 
HETATM 19 O O4' TG . . . N 4 21.422 5.089 35.435 1 43.82 0 O4' TG 105 B 1 
HETATM 20 O O6 TG . . . N 4 15.489 7.96 35.052 1 37.78 0 O6 TG 105 B 1 
HETATM 21 P P TG . . . N 4 20.653 2.131 37.76 1 52.13 0 P TG 105 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    1 
_model_server_stats.query_time_ms           248 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           21 
#