data_6G1Q # _model_server_result.job_id -HQjocgCHOXwDBfqNWcSCQ _model_server_result.datetime_utc '2024-11-22 05:13:41' _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 6g1q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 6G1Q # _exptl.entry_id 6G1Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' _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 6G1Q _cell.length_a 66.905 _cell.length_b 97.458 _cell.length_c 105.503 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G1Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 ? 3 D N N ? 3 F 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 OG1 THR 56 A THR 62 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc2 A OD1 ASP 57 A ASP 63 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc3 A OD1 ASP 58 A ASP 64 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.224 ? metalc ? metalc4 A OD2 ASP 299 A ASP 305 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc5 C MG MG . A MG 401 1_555 D O2D AR6 . A AR6 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc6 C MG MG . A MG 401 1_555 G O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc7 B OG1 THR 56 B THR 62 1_555 E MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc8 B OD1 ASP 57 B ASP 63 1_555 E MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc9 B OD1 ASP 58 B ASP 64 1_555 E MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc10 B OD2 ASP 299 B ASP 305 1_555 E MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc11 E MG MG . B MG 401 1_555 F O2D AR6 . B AR6 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc12 E MG MG . B MG 401 1_555 H O HOH . B HOH 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id AR6 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Adenosine-5-Diphosphoribose # 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 N1 C2 AR6 doub 13 n y N1 C6 AR6 sing 14 n y C2 N3 AR6 sing 15 n y N3 C4 AR6 doub 16 n y C4 C5 AR6 sing 17 n y C4 N9 AR6 sing 18 n y C5 C6 AR6 doub 19 n y C5 N7 AR6 sing 20 n y C6 N6 AR6 sing 21 n n N7 C8 AR6 doub 22 n y C8 N9 AR6 sing 23 n y N9 C1' AR6 sing 24 n n PA O1A AR6 sing 25 n n PA O2A AR6 doub 26 n n PA O3A AR6 sing 27 n n PA O5' AR6 sing 28 n n PB O1B AR6 sing 29 n n PB O2B AR6 doub 30 n n PB O3A AR6 sing 31 n n PB O5D AR6 sing 32 n n C1' C2' AR6 sing 33 n n C1' O4' AR6 sing 34 n n C1D O1D AR6 sing 35 n n C1D C2D AR6 sing 36 n n C1D O4D AR6 sing 37 n n C2' O2' AR6 sing 38 n n C2' C3' AR6 sing 39 n n C2D O2D AR6 sing 40 n n C2D C3D AR6 sing 41 n n C3' O3' AR6 sing 42 n n C3' C4' AR6 sing 43 n n C3D O3D AR6 sing 44 n n C3D C4D AR6 sing 45 n n C4' O4' AR6 sing 46 n n C4' C5' AR6 sing 47 n n C4D O4D AR6 sing 48 n n C4D C5D AR6 sing 49 n n C5' O5' AR6 sing 50 n n C5D O5D AR6 sing 51 n n C2 H2 AR6 sing 52 n n N6 HN6 AR6 sing 53 n n N6 HN6A AR6 sing 54 n n C8 H8 AR6 sing 55 n n C1' H1' AR6 sing 56 n n C1D H1D AR6 sing 57 n n C2' H2' AR6 sing 58 n n O2' HO2' AR6 sing 59 n n C2D H2D AR6 sing 60 n n O2D HO2D AR6 sing 61 n n C3' H3' AR6 sing 62 n n O3' HO3' AR6 sing 63 n n C3D H3D AR6 sing 64 n n O3D HO3D AR6 sing 65 n n C4' H4' AR6 sing 66 n n C4D H4D AR6 sing 67 n n C5' H5' AR6 sing 68 n n C5' "H5'A" AR6 sing 69 n n C5D H5D AR6 sing 70 n n C5D H5DA AR6 sing 71 n n O1A H1A AR6 sing 72 n n O1B H1B AR6 sing 73 n n O1D HD1 AR6 sing 74 n n # _atom_sites.entry_id 6G1Q _atom_sites.fract_transf_matrix[1][1] 0.014947 _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] 0.010261 _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] 0.009478 _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 MG A 1 401 401 MG MG . D 3 AR6 A 1 402 402 AR6 AR6 . E 2 MG B 1 401 401 MG MG . F 3 AR6 B 1 402 402 AR6 AR6 . G 4 HOH A 1 501 501 HOH HOH . G 4 HOH A 2 502 505 HOH HOH . G 4 HOH A 3 503 504 HOH HOH . G 4 HOH A 4 504 511 HOH HOH . G 4 HOH A 5 505 503 HOH HOH . G 4 HOH A 6 506 519 HOH HOH . G 4 HOH A 7 507 507 HOH HOH . G 4 HOH A 8 508 502 HOH HOH . G 4 HOH A 9 509 518 HOH HOH . G 4 HOH A 10 510 506 HOH HOH . G 4 HOH A 11 511 510 HOH HOH . G 4 HOH A 12 512 525 HOH HOH . G 4 HOH A 13 513 515 HOH HOH . G 4 HOH A 14 514 527 HOH HOH . G 4 HOH A 15 515 521 HOH HOH . G 4 HOH A 16 516 523 HOH HOH . G 4 HOH A 17 517 529 HOH HOH . G 4 HOH A 18 518 539 HOH HOH . G 4 HOH A 19 519 526 HOH HOH . G 4 HOH A 20 520 517 HOH HOH . G 4 HOH A 21 521 522 HOH HOH . G 4 HOH A 22 522 547 HOH HOH . G 4 HOH A 23 523 509 HOH HOH . G 4 HOH A 24 524 533 HOH HOH . G 4 HOH A 25 525 513 HOH HOH . G 4 HOH A 26 526 514 HOH HOH . G 4 HOH A 27 527 508 HOH HOH . G 4 HOH A 28 528 536 HOH HOH . G 4 HOH A 29 529 538 HOH HOH . G 4 HOH A 30 530 528 HOH HOH . G 4 HOH A 31 531 524 HOH HOH . G 4 HOH A 32 532 531 HOH HOH . G 4 HOH A 33 533 542 HOH HOH . G 4 HOH A 34 534 535 HOH HOH . G 4 HOH A 35 535 530 HOH HOH . G 4 HOH A 36 536 545 HOH HOH . G 4 HOH A 37 537 543 HOH HOH . G 4 HOH A 38 538 550 HOH HOH . G 4 HOH A 39 539 537 HOH HOH . G 4 HOH A 40 540 540 HOH HOH . G 4 HOH A 41 541 549 HOH HOH . H 4 HOH B 1 501 502 HOH HOH . H 4 HOH B 2 502 507 HOH HOH . H 4 HOH B 3 503 504 HOH HOH . H 4 HOH B 4 504 508 HOH HOH . H 4 HOH B 5 505 514 HOH HOH . H 4 HOH B 6 506 510 HOH HOH . H 4 HOH B 7 507 509 HOH HOH . H 4 HOH B 8 508 501 HOH HOH . H 4 HOH B 9 509 503 HOH HOH . H 4 HOH B 10 510 511 HOH HOH . H 4 HOH B 11 511 516 HOH HOH . H 4 HOH B 12 512 515 HOH HOH . H 4 HOH B 13 513 505 HOH HOH . H 4 HOH B 14 514 534 HOH HOH . H 4 HOH B 15 515 525 HOH HOH . H 4 HOH B 16 516 520 HOH HOH . H 4 HOH B 17 517 513 HOH HOH . H 4 HOH B 18 518 524 HOH HOH . H 4 HOH B 19 519 535 HOH HOH . H 4 HOH B 20 520 521 HOH HOH . H 4 HOH B 21 521 527 HOH HOH . H 4 HOH B 22 522 522 HOH HOH . H 4 HOH B 23 523 529 HOH HOH . H 4 HOH B 24 524 526 HOH HOH . H 4 HOH B 25 525 519 HOH HOH . H 4 HOH B 26 526 531 HOH HOH . H 4 HOH B 27 527 533 HOH HOH . H 4 HOH B 28 528 530 HOH HOH . H 4 HOH B 29 529 537 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 AR6 . . . D 3 22.006 57.457 107.202 1 73.53 ? N1 AR6 402 A 1 HETATM 2 C C2 AR6 . . . D 3 23.34 57.686 107.279 1 72.66 ? C2 AR6 402 A 1 HETATM 3 N N3 AR6 . . . D 3 24.197 56.858 107.918 1 70.26 ? N3 AR6 402 A 1 HETATM 4 C C4 AR6 . . . D 3 23.797 55.727 108.525 1 66.6 ? C4 AR6 402 A 1 HETATM 5 C C5 AR6 . . . D 3 22.372 55.41 108.476 1 69.74 ? C5 AR6 402 A 1 HETATM 6 C C6 AR6 . . . D 3 21.47 56.354 107.763 1 72.22 ? C6 AR6 402 A 1 HETATM 7 N N6 AR6 . . . D 3 20.151 56.091 107.69 1 73.99 ? N6 AR6 402 A 1 HETATM 8 N N7 AR6 . . . D 3 22.208 54.255 109.129 1 67.4 ? N7 AR6 402 A 1 HETATM 9 C C8 AR6 . . . D 3 23.419 53.862 109.568 1 65.02 ? C8 AR6 402 A 1 HETATM 10 N N9 AR6 . . . D 3 24.368 54.743 109.198 1 65.34 ? N9 AR6 402 A 1 HETATM 11 P PA AR6 . . . D 3 24.185 52.828 114.233 1 58.35 ? PA AR6 402 A 1 HETATM 12 P PB AR6 . . . D 3 24.45 49.959 114.917 1 53.57 ? PB AR6 402 A 1 HETATM 13 C C1' AR6 . . . D 3 25.808 54.553 109.533 1 63.39 ? C1' AR6 402 A 1 HETATM 14 O O1A AR6 . . . D 3 24.926 53.858 115.015 1 56.11 ? O1A AR6 402 A 1 HETATM 15 O O1B AR6 . . . D 3 23.817 49.547 113.59 1 54.5 ? O1B AR6 402 A 1 HETATM 16 C C1D AR6 . . . D 3 29.268 48.641 115.874 1 56.79 ? C1D AR6 402 A 1 HETATM 17 O O1D AR6 . . . D 3 30.611 48.139 115.618 1 62.99 ? O1D AR6 402 A 1 HETATM 18 C C2' AR6 . . . D 3 26.359 55.681 110.397 1 63.42 ? C2' AR6 402 A 1 HETATM 19 O O2' AR6 . . . D 3 27.616 56.154 109.862 1 62.25 ? O2' AR6 402 A 1 HETATM 20 O O2A AR6 . . . D 3 22.628 52.813 114.159 1 55.67 ? O2A AR6 402 A 1 HETATM 21 O O2B AR6 . . . D 3 23.87 49.652 116.263 1 52.27 ? O2B AR6 402 A 1 HETATM 22 C C2D AR6 . . . D 3 28.346 47.492 116.255 1 53.71 ? C2D AR6 402 A 1 HETATM 23 O O2D AR6 . . . D 3 28.978 46.464 117.064 1 53.97 ? O2D AR6 402 A 1 HETATM 24 C C3' AR6 . . . D 3 26.331 55.061 111.813 1 61.97 ? C3' AR6 402 A 1 HETATM 25 O O3' AR6 . . . D 3 27.223 55.615 112.846 1 63.63 ? O3' AR6 402 A 1 HETATM 26 O O3A AR6 . . . D 3 24.883 51.517 114.881 1 53.6 ? O3A AR6 402 A 1 HETATM 27 C C3D AR6 . . . D 3 27.91 47.035 114.861 1 54.97 ? C3D AR6 402 A 1 HETATM 28 O O3D AR6 . . . D 3 28.846 46.096 114.38 1 55.04 ? O3D AR6 402 A 1 HETATM 29 C C4' AR6 . . . D 3 26.554 53.6 111.483 1 58.7 ? C4' AR6 402 A 1 HETATM 30 O O4' AR6 . . . D 3 25.862 53.347 110.29 1 58.95 ? O4' AR6 402 A 1 HETATM 31 C C4D AR6 . . . D 3 27.968 48.272 113.94 1 57.15 ? C4D AR6 402 A 1 HETATM 32 O O4D AR6 . . . D 3 28.761 49.218 114.655 1 57.05 ? O4D AR6 402 A 1 HETATM 33 C C5' AR6 . . . D 3 26.062 52.612 112.515 1 57.03 ? C5' AR6 402 A 1 HETATM 34 O O5' AR6 . . . D 3 24.707 52.808 112.723 1 56.24 ? O5' AR6 402 A 1 HETATM 35 C C5D AR6 . . . D 3 26.58 48.879 113.644 1 57.28 ? C5D AR6 402 A 1 HETATM 36 O O5D AR6 . . . D 3 25.827 49.087 114.86 1 57.65 ? O5D AR6 402 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #