data_6MP8 # _model_server_result.job_id iTr2N4JFUTyvymKSuS_zrA _model_server_result.datetime_utc '2024-11-13 14:20:01' _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 6mp8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6MP8 # _exptl.entry_id 6MP8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.209 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description D-ARGININE _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 108.15 _cell.angle_gamma 90 _cell.entry_id 6MP8 _cell.length_a 79.957 _cell.length_b 67.039 _cell.length_c 62.13 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MP8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id D _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 metalc ? metalc1 A NE2 HIS 148 A HIS 168 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc2 A OE1 GLU 150 A GLU 170 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc3 A NE2 HIS 296 A HIS 316 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc4 B O1 AKG . A AKG 401 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc5 B O5 AKG . A AKG 401 1_555 C FE FE2 . A FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? # _chem_comp.formula 'C6 H15 N4 O2 1' _chem_comp.formula_weight 175.209 _chem_comp.id DAR _chem_comp.mon_nstd_flag . _chem_comp.name D-ARGININE _chem_comp.type 'd-peptide 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 N CA DAR sing 98 n n N H DAR sing 99 n n N H2 DAR sing 100 n n CA CB DAR sing 101 n n CA C DAR sing 102 n n CA HA DAR sing 103 n n CB CG DAR sing 104 n n CB HB2 DAR sing 105 n n CB HB3 DAR sing 106 n n CG CD DAR sing 107 n n CG HG2 DAR sing 108 n n CG HG3 DAR sing 109 n n CD NE DAR sing 110 n n CD HD2 DAR sing 111 n n CD HD3 DAR sing 112 n n NE CZ DAR sing 113 n n NE HE DAR sing 114 n n CZ NH1 DAR sing 115 n n CZ NH2 DAR doub 116 n n NH1 HH11 DAR sing 117 n n NH1 HH12 DAR sing 118 n n NH2 HH21 DAR sing 119 n n NH2 HH22 DAR sing 120 n n C O DAR doub 121 n n C OXT DAR sing 122 n n OXT HXT DAR sing 123 n n # _atom_sites.entry_id 6MP8 _atom_sites.fract_transf_matrix[1][1] 0.012507 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.0041 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014917 _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] 0.016938 _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 B 2 AKG A 1 401 1 AKG AKG . C 3 FE2 A 1 402 1 FE2 FE2 . D 4 DAR A 1 403 1 DAR DAR . E 5 HOH A 1 501 20 HOH HOH . E 5 HOH A 2 502 27 HOH HOH . E 5 HOH A 3 503 60 HOH HOH . E 5 HOH A 4 504 14 HOH HOH . E 5 HOH A 5 505 1 HOH HOH . E 5 HOH A 6 506 64 HOH HOH . E 5 HOH A 7 507 12 HOH HOH . E 5 HOH A 8 508 58 HOH HOH . E 5 HOH A 9 509 55 HOH HOH . E 5 HOH A 10 510 3 HOH HOH . E 5 HOH A 11 511 19 HOH HOH . E 5 HOH A 12 512 61 HOH HOH . E 5 HOH A 13 513 56 HOH HOH . E 5 HOH A 14 514 10 HOH HOH . E 5 HOH A 15 515 36 HOH HOH . E 5 HOH A 16 516 17 HOH HOH . E 5 HOH A 17 517 24 HOH HOH . E 5 HOH A 18 518 49 HOH HOH . E 5 HOH A 19 519 32 HOH HOH . E 5 HOH A 20 520 5 HOH HOH . E 5 HOH A 21 521 7 HOH HOH . E 5 HOH A 22 522 68 HOH HOH . E 5 HOH A 23 523 40 HOH HOH . E 5 HOH A 24 524 30 HOH HOH . E 5 HOH A 25 525 21 HOH HOH . E 5 HOH A 26 526 26 HOH HOH . E 5 HOH A 27 527 18 HOH HOH . E 5 HOH A 28 528 9 HOH HOH . E 5 HOH A 29 529 62 HOH HOH . E 5 HOH A 30 530 13 HOH HOH . E 5 HOH A 31 531 4 HOH HOH . E 5 HOH A 32 532 31 HOH HOH . E 5 HOH A 33 533 70 HOH HOH . E 5 HOH A 34 534 65 HOH HOH . E 5 HOH A 35 535 57 HOH HOH . E 5 HOH A 36 536 15 HOH HOH . E 5 HOH A 37 537 6 HOH HOH . E 5 HOH A 38 538 48 HOH HOH . E 5 HOH A 39 539 63 HOH HOH . E 5 HOH A 40 540 25 HOH HOH . E 5 HOH A 41 541 69 HOH HOH . E 5 HOH A 42 542 8 HOH HOH . E 5 HOH A 43 543 35 HOH HOH . E 5 HOH A 44 544 29 HOH HOH . E 5 HOH A 45 545 72 HOH HOH . E 5 HOH A 46 546 53 HOH HOH . E 5 HOH A 47 547 16 HOH HOH . E 5 HOH A 48 548 22 HOH HOH . E 5 HOH A 49 549 2 HOH HOH . E 5 HOH A 50 550 54 HOH HOH . E 5 HOH A 51 551 11 HOH HOH . E 5 HOH A 52 552 73 HOH HOH . E 5 HOH A 53 553 23 HOH HOH . E 5 HOH A 54 554 67 HOH HOH . E 5 HOH A 55 555 37 HOH HOH . E 5 HOH A 56 556 39 HOH HOH . E 5 HOH A 57 557 33 HOH HOH . E 5 HOH A 58 558 66 HOH HOH . E 5 HOH A 59 559 44 HOH HOH . E 5 HOH A 60 560 28 HOH HOH . E 5 HOH A 61 561 71 HOH HOH . E 5 HOH A 62 562 43 HOH HOH . E 5 HOH A 63 563 59 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 N DAR . . . D 4 -8.913 6.172 77.223 1 37.55 ? N DAR 403 A 1 HETATM 2 C CA DAR . . . D 4 -8.014 6.506 78.374 1 37.1 ? CA DAR 403 A 1 HETATM 3 C CB DAR . . . D 4 -7.722 8.006 78.407 1 36.71 ? CB DAR 403 A 1 HETATM 4 C CG DAR . . . D 4 -8.893 8.767 79.023 1 35.9 ? CG DAR 403 A 1 HETATM 5 C CD DAR . . . D 4 -8.663 10.273 79.016 1 35.55 ? CD DAR 403 A 1 HETATM 6 N NE DAR . . . D 4 -9.806 10.982 79.568 1 34.72 ? NE DAR 403 A 1 HETATM 7 C CZ DAR . . . D 4 -10.079 11.082 80.877 1 33.86 ? CZ DAR 403 A 1 HETATM 8 N NH1 DAR . . . D 4 -9.305 10.534 81.821 1 33.51 ? NH1 DAR 403 A 1 HETATM 9 N NH2 DAR . . . D 4 -11.167 11.757 81.261 1 33.11 ? NH2 DAR 403 A 1 HETATM 10 C C DAR . . . D 4 -6.73 5.728 78.27 1 36.96 ? C DAR 403 A 1 HETATM 11 O O DAR . . . D 4 -6.45 5.06 77.272 1 37.3 ? O DAR 403 A 1 HETATM 12 O OXT DAR . . . D 4 -5.922 5.739 79.194 1 35.59 ? OXT DAR 403 A 1 # _model_server_stats.io_time_ms 157 _model_server_stats.parse_time_ms 137 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 12 #