data_6RNO
#
_model_server_result.job_id            V4h_UQs-6hi2j2bUbUaY_A 
_model_server_result.datetime_utc      '2024-11-18 15:02:47' 
_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          6rno 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":101}' 
#
_entry.id    6RNO 
#
_exptl.entry_id    6RNO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              167.188 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-sulfanylidene-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one 
_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         90 
_cell.entry_id            6RNO 
_cell.length_a            91.423 
_cell.length_b            91.423 
_cell.length_c            140.276 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RNO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_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
disulf ? disulf1 A SG CYS 245 A CYS 245 1_555 A SG CYS 265 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf2 A SG CYS 265 A CYS 265 1_555 A SG CYS 268 A CYS 268 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.044 ? 
covale ? covale1 B O3' DT 6 D DT 6 1_555 B P 3DR 7 D 3DR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? 
covale ? covale2 B O3' 3DR 7 D 3DR 7 1_555 B P DT 8 D DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.61 ? 
hydrog WATSON-CRICK hydrog1 B N3 DT 2 D DT 2 1_555 C N1 DA 14 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 B O4 DT 2 D DT 2 1_555 C N6 DA 14 E DA 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 B N3 DC 3 D DC 3 1_555 C N1 DG 13 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 B N4 DC 3 D DC 3 1_555 C O6 DG 13 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 B O2 DC 3 D DC 3 1_555 C N2 DG 13 E DG 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 B N3 DT 4 D DT 4 1_555 C N1 DA 12 E DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 B O4 DT 4 D DT 4 1_555 C N6 DA 12 E DA 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 B N3 DT 5 D DT 5 1_555 C N1 DA 11 E DA 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 B O4 DT 5 D DT 5 1_555 C N6 DA 11 E DA 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 B N3 DT 6 D DT 6 1_555 C N1 DA 10 E DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 B O4 DT 6 D DT 6 1_555 C N6 DA 10 E DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 B N3 DT 8 D DT 8 1_555 C N1 DA 8 E DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 B O4 DT 8 D DT 8 1_555 C N6 DA 8 E DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 B N3 DT 9 D DT 9 1_555 C N1 DA 7 E DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 B O4 DT 9 D DT 9 1_555 C N6 DA 7 E DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 B N3 DT 10 D DT 10 1_555 C N1 DA 6 E DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 B O4 DT 10 D DT 10 1_555 C N6 DA 6 E DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 B N3 DC 11 D DC 11 1_555 C N1 DG 5 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog19 B N4 DC 11 D DC 11 1_555 C O6 DG 5 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog20 B O2 DC 11 D DC 11 1_555 C N2 DG 5 E DG 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog21 B N3 DT 12 D DT 12 1_555 C N1 DA 4 E DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog22 B O4 DT 12 D DT 12 1_555 C N6 DA 4 E DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog23 B N3 DC 13 D DC 13 1_555 C N1 DG 3 E DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog24 B N4 DC 13 D DC 13 1_555 C O6 DG 3 E DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog25 B O2 DC 13 D DC 13 1_555 C N2 DG 3 E DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog26 B N1 DG 14 D DG 14 1_555 C N3 DC 2 E DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog27 B N2 DG 14 D DG 14 1_555 C O2 DC 2 E DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog28 B O6 DG 14 D DG 14 1_555 C N4 DC 2 E DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C6 H5 N3 O S' 
_chem_comp.formula_weight    167.188 
_chem_comp.id                KBQ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-sulfanylidene-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one 
_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
S2 C2 KBQ doub 358 n n 
C2 N1 KBQ sing 359 n n 
C2 N3 KBQ sing 360 n n 
N1 C6 KBQ sing 361 n n 
N3 C4 KBQ sing 362 n n 
C6 O6 KBQ doub 363 n n 
C6 C5 KBQ sing 364 n n 
C4 C5 KBQ doub 365 n y 
C4 N9 KBQ sing 366 n y 
C5 C7 KBQ sing 367 n y 
N9 C8 KBQ sing 368 n y 
C7 C8 KBQ doub 369 n y 
N1 H1 KBQ sing 370 n n 
N3 H2 KBQ sing 371 n n 
C7 H3 KBQ sing 372 n n 
C8 H4 KBQ sing 373 n n 
N9 H5 KBQ sing 374 n n 
#
_atom_sites.entry_id                     6RNO 
_atom_sites.fract_transf_matrix[1][1]    0.010938 
_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]    0.010938 
_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]    0.007129 
_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 4 GOL A 1 301 1 GOL GOL . 
E 5 KBQ D 1 101 1 KBQ LIG . 
F 6 HOH A 1 401 18 HOH HOH . 
F 6 HOH A 2 402 15 HOH HOH . 
F 6 HOH A 3 403 2 HOH HOH . 
F 6 HOH A 4 404 10 HOH HOH . 
F 6 HOH A 5 405 60 HOH HOH . 
F 6 HOH A 6 406 12 HOH HOH . 
F 6 HOH A 7 407 7 HOH HOH . 
F 6 HOH A 8 408 1 HOH HOH . 
F 6 HOH A 9 409 58 HOH HOH . 
F 6 HOH A 10 410 50 HOH HOH . 
F 6 HOH A 11 411 17 HOH HOH . 
F 6 HOH A 12 412 14 HOH HOH . 
F 6 HOH A 13 413 39 HOH HOH . 
F 6 HOH A 14 414 4 HOH HOH . 
F 6 HOH A 15 415 11 HOH HOH . 
F 6 HOH A 16 416 8 HOH HOH . 
F 6 HOH A 17 417 40 HOH HOH . 
F 6 HOH A 18 418 21 HOH HOH . 
F 6 HOH A 19 419 24 HOH HOH . 
F 6 HOH A 20 420 5 HOH HOH . 
F 6 HOH A 21 421 36 HOH HOH . 
F 6 HOH A 22 422 19 HOH HOH . 
F 6 HOH A 23 423 3 HOH HOH . 
F 6 HOH A 24 424 38 HOH HOH . 
F 6 HOH A 25 425 33 HOH HOH . 
F 6 HOH A 26 426 49 HOH HOH . 
F 6 HOH A 27 427 25 HOH HOH . 
F 6 HOH A 28 428 67 HOH HOH . 
F 6 HOH A 29 429 26 HOH HOH . 
F 6 HOH A 30 430 27 HOH HOH . 
F 6 HOH A 31 431 6 HOH HOH . 
F 6 HOH A 32 432 71 HOH HOH . 
F 6 HOH A 33 433 34 HOH HOH . 
F 6 HOH A 34 434 30 HOH HOH . 
F 6 HOH A 35 435 28 HOH HOH . 
F 6 HOH A 36 436 13 HOH HOH . 
F 6 HOH A 37 437 74 HOH HOH . 
F 6 HOH A 38 438 41 HOH HOH . 
F 6 HOH A 39 439 23 HOH HOH . 
F 6 HOH A 40 440 48 HOH HOH . 
F 6 HOH A 41 441 35 HOH HOH . 
F 6 HOH A 42 442 43 HOH HOH . 
F 6 HOH A 43 443 20 HOH HOH . 
F 6 HOH A 44 444 32 HOH HOH . 
F 6 HOH A 45 445 57 HOH HOH . 
F 6 HOH A 46 446 42 HOH HOH . 
F 6 HOH A 47 447 72 HOH HOH . 
F 6 HOH A 48 448 46 HOH HOH . 
F 6 HOH A 49 449 44 HOH HOH . 
F 6 HOH A 50 450 52 HOH HOH . 
F 6 HOH A 51 451 54 HOH HOH . 
F 6 HOH A 52 452 31 HOH HOH . 
F 6 HOH A 53 453 22 HOH HOH . 
F 6 HOH A 54 454 73 HOH HOH . 
F 6 HOH A 55 455 9 HOH HOH . 
F 6 HOH A 56 456 65 HOH HOH . 
F 6 HOH A 57 457 68 HOH HOH . 
F 6 HOH A 58 458 59 HOH HOH . 
F 6 HOH A 59 459 37 HOH HOH . 
F 6 HOH A 60 460 70 HOH HOH . 
F 6 HOH A 61 461 75 HOH HOH . 
F 6 HOH A 62 462 66 HOH HOH . 
F 6 HOH A 63 463 63 HOH HOH . 
F 6 HOH A 64 464 53 HOH HOH . 
F 6 HOH A 65 465 69 HOH HOH . 
F 6 HOH A 66 466 45 HOH HOH . 
F 6 HOH A 67 467 76 HOH HOH . 
G 6 HOH D 1 201 64 HOH HOH . 
G 6 HOH D 2 202 29 HOH HOH . 
G 6 HOH D 3 203 16 HOH HOH . 
G 6 HOH D 4 204 62 HOH HOH . 
G 6 HOH D 5 205 55 HOH HOH . 
G 6 HOH D 6 206 47 HOH HOH . 
G 6 HOH D 7 207 51 HOH HOH . 
G 6 HOH D 8 208 56 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 N N1 KBQ . . . E 5 -68.44 90.189 160.914 1 59.99 ? N1 KBQ 101 D 1 
HETATM 2 N N3 KBQ . . . E 5 -70.45 88.979 160.948 1 56.78 ? N3 KBQ 101 D 1 
HETATM 3 C C4 KBQ . . . E 5 -69.853 87.984 161.634 1 56.92 ? C4 KBQ 101 D 1 
HETATM 4 C C5 KBQ . . . E 5 -68.53 88.081 161.968 1 62.5 ? C5 KBQ 101 D 1 
HETATM 5 C C6 KBQ . . . E 5 -67.819 89.203 161.604 1 61.92 ? C6 KBQ 101 D 1 
HETATM 6 C C7 KBQ . . . E 5 -68.198 86.945 162.651 1 57.92 ? C7 KBQ 101 D 1 
HETATM 7 C C8 KBQ . . . E 5 -69.309 86.144 162.737 1 48.84 ? C8 KBQ 101 D 1 
HETATM 8 C C2 KBQ . . . E 5 -69.768 90.092 160.58 1 57.65 ? C2 KBQ 101 D 1 
HETATM 9 N N9 KBQ . . . E 5 -70.322 86.793 162.109 1 53.58 ? N9 KBQ 101 D 1 
HETATM 10 O O6 KBQ . . . E 5 -66.634 89.303 161.894 1 53.48 ? O6 KBQ 101 D 1 
HETATM 11 S S2 KBQ . . . E 5 -70.575 91.302 159.725 1 58.15 ? S2 KBQ 101 D 1 
#
_model_server_stats.io_time_ms              48 
_model_server_stats.parse_time_ms           23 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           332 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           11 
#