data_4NJJ # _model_server_result.job_id 81CTFgjpnTNHHE4HP5Rjxg _model_server_result.datetime_utc '2025-02-17 22:24:00' _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 4njj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":303}' # _entry.id 4NJJ # _exptl.entry_id 4NJJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 211.178 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(6R)-2-amino-4-oxo-3,4,5,6,7,8-hexahydropteridine-6-carboxylic acid' _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 4NJJ _cell.length_a 119.174 _cell.length_b 119.174 _cell.length_c 105.31 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NJJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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 J 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 A SG CYS 51 A CYS 31 1_555 C FE4 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc2 A SG CYS 66 A CYS 46 1_555 C FE1 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc3 A SG CYS 69 A CYS 49 1_555 C FE2 SF4 . A SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc4 A OD2 ASP 72 A ASP 52 1_555 G MN MN . A MN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc5 C FE3 SF4 . A SF4 301 1_555 D N SAM . A SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc6 C FE3 SF4 . A SF4 301 1_555 D O SAM . A SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc7 E N5 2K8 . A 2K8 303 1_555 F MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc8 E O4 2K8 . A 2K8 303 1_555 F MN MN . A MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc9 F MN MN . A MN 304 1_555 M O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc10 B SG CYS 51 B CYS 31 1_555 H FE4 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc11 B SG CYS 66 B CYS 46 1_555 H FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc12 B SG CYS 69 B CYS 49 1_555 H FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc13 B OD2 ASP 72 B ASP 52 1_555 L MN MN . B MN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc14 H FE3 SF4 . B SF4 301 1_555 I N SAM . B SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc15 H FE3 SF4 . B SF4 301 1_555 I O SAM . B SAM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc16 J N5 2K8 . B 2K8 303 1_555 K MN MN . B MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc17 J O4 2K8 . B 2K8 303 1_555 K MN MN . B MN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.777 ? metalc ? metalc18 K MN MN . B MN 304 1_555 N O HOH . B HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc19 K MN MN . B MN 304 1_555 N O HOH . B HOH 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? # _chem_comp.formula 'C7 H9 N5 O3' _chem_comp.formula_weight 211.178 _chem_comp.id 2K8 _chem_comp.mon_nstd_flag . _chem_comp.name '(6R)-2-amino-4-oxo-3,4,5,6,7,8-hexahydropteridine-6-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 6-carboxy-5,6,7,8-tetrahydropterin # 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 C7 N8 2K8 sing 1 n n C7 C6 2K8 sing 2 n n N8 C8A 2K8 sing 3 n n C6 C6A 2K8 sing 4 n n C6 N5 2K8 sing 5 n n C8A N1 2K8 sing 6 n n C8A C4A 2K8 doub 7 n n O6B C6A 2K8 doub 8 n n C6A O6A 2K8 sing 9 n n N1 C2 2K8 doub 10 n n N5 C4A 2K8 sing 11 n n C4A C4 2K8 sing 12 n n C2 N2 2K8 sing 13 n n C2 N3 2K8 sing 14 n n C4 N3 2K8 sing 15 n n C4 O4 2K8 doub 16 n n O6A H1 2K8 sing 17 n n C6 H2 2K8 sing 18 n n N5 H3 2K8 sing 19 n n C7 H4 2K8 sing 20 n n C7 H5 2K8 sing 21 n n N8 H6 2K8 sing 22 n n N2 H7 2K8 sing 23 n n N2 H8 2K8 sing 24 n n N3 H9 2K8 sing 25 n n # _atom_sites.entry_id 4NJJ _atom_sites.fract_transf_matrix[1][1] 0.008391 _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] 0.008391 _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] 0.009496 _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 SF4 A 1 301 240 SF4 SF4 . D 3 SAM A 1 302 241 SAM SAM . E 4 2K8 A 1 303 501 2K8 2K8 . F 5 MN A 1 304 601 MN MN . G 5 MN A 1 305 2 MN MN . H 2 SF4 B 1 301 240 SF4 SF4 . I 3 SAM B 1 302 241 SAM SAM . J 4 2K8 B 1 303 501 2K8 2K8 . K 5 MN B 1 304 601 MN MN . L 5 MN B 1 305 1 MN MN . M 6 HOH A 1 401 2 HOH HOH . M 6 HOH A 2 402 5 HOH HOH . M 6 HOH A 3 403 6 HOH HOH . M 6 HOH A 4 404 7 HOH HOH . M 6 HOH A 5 405 8 HOH HOH . M 6 HOH A 6 406 12 HOH HOH . M 6 HOH A 7 407 13 HOH HOH . M 6 HOH A 8 408 16 HOH HOH . M 6 HOH A 9 409 18 HOH HOH . M 6 HOH A 10 410 22 HOH HOH . M 6 HOH A 11 411 24 HOH HOH . M 6 HOH A 12 412 25 HOH HOH . M 6 HOH A 13 413 29 HOH HOH . M 6 HOH A 14 414 31 HOH HOH . M 6 HOH A 15 415 32 HOH HOH . M 6 HOH A 16 416 33 HOH HOH . M 6 HOH A 17 417 37 HOH HOH . M 6 HOH A 18 418 38 HOH HOH . M 6 HOH A 19 419 39 HOH HOH . M 6 HOH A 20 420 40 HOH HOH . M 6 HOH A 21 421 41 HOH HOH . M 6 HOH A 22 422 42 HOH HOH . M 6 HOH A 23 423 45 HOH HOH . M 6 HOH A 24 424 48 HOH HOH . M 6 HOH A 25 425 50 HOH HOH . M 6 HOH A 26 426 51 HOH HOH . M 6 HOH A 27 427 53 HOH HOH . M 6 HOH A 28 428 55 HOH HOH . M 6 HOH A 29 429 56 HOH HOH . M 6 HOH A 30 430 57 HOH HOH . M 6 HOH A 31 431 60 HOH HOH . M 6 HOH A 32 432 61 HOH HOH . M 6 HOH A 33 433 63 HOH HOH . M 6 HOH A 34 434 64 HOH HOH . M 6 HOH A 35 435 65 HOH HOH . M 6 HOH A 36 436 67 HOH HOH . N 6 HOH B 1 401 1 HOH HOH . N 6 HOH B 2 402 3 HOH HOH . N 6 HOH B 3 403 4 HOH HOH . N 6 HOH B 4 404 9 HOH HOH . N 6 HOH B 5 405 10 HOH HOH . N 6 HOH B 6 406 11 HOH HOH . N 6 HOH B 7 407 14 HOH HOH . N 6 HOH B 8 408 15 HOH HOH . N 6 HOH B 9 409 17 HOH HOH . N 6 HOH B 10 410 19 HOH HOH . N 6 HOH B 11 411 20 HOH HOH . N 6 HOH B 12 412 21 HOH HOH . N 6 HOH B 13 413 23 HOH HOH . N 6 HOH B 14 414 26 HOH HOH . N 6 HOH B 15 415 27 HOH HOH . N 6 HOH B 16 416 28 HOH HOH . N 6 HOH B 17 417 30 HOH HOH . N 6 HOH B 18 418 34 HOH HOH . N 6 HOH B 19 419 35 HOH HOH . N 6 HOH B 20 420 36 HOH HOH . N 6 HOH B 21 421 43 HOH HOH . N 6 HOH B 22 422 44 HOH HOH . N 6 HOH B 23 423 46 HOH HOH . N 6 HOH B 24 424 47 HOH HOH . N 6 HOH B 25 425 49 HOH HOH . N 6 HOH B 26 426 52 HOH HOH . N 6 HOH B 27 427 54 HOH HOH . N 6 HOH B 28 428 58 HOH HOH . N 6 HOH B 29 429 59 HOH HOH . N 6 HOH B 30 430 62 HOH HOH . N 6 HOH B 31 431 66 HOH HOH . N 6 HOH B 32 432 68 HOH HOH . N 6 HOH B 33 433 69 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 O O6A 2K8 . . . J 4 12.842 83.555 6.614 1 67.72 ? O6A 2K8 303 B 1 HETATM 2 C C6A 2K8 . . . J 4 12.784 82.306 6.591 1 57.89 ? C6A 2K8 303 B 1 HETATM 3 O O6B 2K8 . . . J 4 13.235 81.574 5.683 1 61.7 ? O6B 2K8 303 B 1 HETATM 4 C C6 2K8 . . . J 4 12.112 81.615 7.787 1 63.94 ? C6 2K8 303 B 1 HETATM 5 N N5 2K8 . . . J 4 11.556 80.315 7.449 1 66.03 ? N5 2K8 303 B 1 HETATM 6 C C4A 2K8 . . . J 4 10.274 80.354 6.842 1 61.22 ? C4A 2K8 303 B 1 HETATM 7 C C7 2K8 . . . J 4 11.044 82.499 8.489 1 64.21 ? C7 2K8 303 B 1 HETATM 8 N N8 2K8 . . . J 4 9.706 82.488 7.905 1 59.78 ? N8 2K8 303 B 1 HETATM 9 C C8A 2K8 . . . J 4 9.344 81.369 7.138 1 59.47 ? C8A 2K8 303 B 1 HETATM 10 N N1 2K8 . . . J 4 8.066 81.384 6.691 1 49.12 ? N1 2K8 303 B 1 HETATM 11 C C2 2K8 . . . J 4 7.732 80.358 5.913 1 60 ? C2 2K8 303 B 1 HETATM 12 N N2 2K8 . . . J 4 6.48 80.249 5.464 1 52.63 ? N2 2K8 303 B 1 HETATM 13 N N3 2K8 . . . J 4 8.607 79.366 5.561 1 63.55 ? N3 2K8 303 B 1 HETATM 14 C C4 2K8 . . . J 4 9.92 79.281 5.984 1 59.79 ? C4 2K8 303 B 1 HETATM 15 O O4 2K8 . . . J 4 10.641 78.352 5.612 1 64.68 ? O4 2K8 303 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 541 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 15 #