data_4JJZ # _model_server_result.job_id gH3g80mlZQxvz1IHLS0g_Q _model_server_result.datetime_utc '2024-10-15 08:26:03' _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 4jjz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":602}' # _entry.id 4JJZ # _exptl.entry_id 4JJZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 4JJZ _cell.length_a 91.17 _cell.length_b 212.976 _cell.length_c 53.444 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JJZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 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 I 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 75 A THR 75 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc2 A OE2 GLU 301 A GLU 301 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc3 D O1B ADP . A ADP 602 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc4 E O4 XPO . A XPO 603 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc5 G MG MG . A MG 605 1_555 N O HOH . A HOH 784 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc6 G MG MG . A MG 605 1_555 N O HOH . A HOH 785 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc7 B OG1 THR 75 B THR 75 1_555 M MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc8 B OE2 GLU 301 B GLU 301 1_555 M MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc9 I O1B ADP . B ADP 602 1_555 M MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc10 J O3 XPO . B XPO 603 1_555 M MG MG . B MG 606 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc11 J O1 XPO . B XPO 603 1_555 M MG MG . B MG 606 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc12 M MG MG . B MG 606 1_555 O O HOH . B HOH 749 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc13 M MG MG . B MG 606 1_555 O O HOH . B HOH 774 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 38 n n PB O2B ADP sing 39 n n PB O3B ADP sing 40 n n PB O3A ADP sing 41 n n O2B HOB2 ADP sing 42 n n O3B HOB3 ADP sing 43 n n PA O1A ADP doub 44 n n PA O2A ADP sing 45 n n PA O3A ADP sing 46 n n PA O5' ADP sing 47 n n O2A HOA2 ADP sing 48 n n O5' C5' ADP sing 49 n n C5' C4' ADP sing 50 n n C5' "H5'1" ADP sing 51 n n C5' "H5'2" ADP sing 52 n n C4' O4' ADP sing 53 n n C4' C3' ADP sing 54 n n C4' H4' ADP sing 55 n n O4' C1' ADP sing 56 n n C3' O3' ADP sing 57 n n C3' C2' ADP sing 58 n n C3' H3' ADP sing 59 n n O3' HO3' ADP sing 60 n n C2' O2' ADP sing 61 n n C2' C1' ADP sing 62 n n C2' H2' ADP sing 63 n n O2' HO2' ADP sing 64 n n C1' N9 ADP sing 65 n n C1' H1' ADP sing 66 n n N9 C8 ADP sing 67 n y N9 C4 ADP sing 68 n y C8 N7 ADP doub 69 n y C8 H8 ADP sing 70 n n N7 C5 ADP sing 71 n y C5 C6 ADP sing 72 n y C5 C4 ADP doub 73 n y C6 N6 ADP sing 74 n n C6 N1 ADP doub 75 n y N6 HN61 ADP sing 76 n n N6 HN62 ADP sing 77 n n N1 C2 ADP sing 78 n y C2 N3 ADP doub 79 n y C2 H2 ADP sing 80 n n N3 C4 ADP sing 81 n y # _atom_sites.entry_id 4JJZ _atom_sites.fract_transf_matrix[1][1] 0.010969 _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] 0.004695 _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] 0.018711 _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 SO4 A 1 601 601 SO4 SO4 . D 3 ADP A 1 602 602 ADP ADP . E 4 XPO A 1 603 603 XPO XPO . F 5 TOE A 1 604 604 TOE TOE . G 6 MG A 1 605 605 MG MG . H 2 SO4 B 1 601 601 SO4 SO4 . I 3 ADP B 1 602 602 ADP ADP . J 4 XPO B 1 603 603 XPO XPO . K 5 TOE B 1 604 604 TOE TOE . L 7 1PE B 1 605 605 1PE 1PE . M 6 MG B 1 606 606 MG MG . N 8 HOH A 1 701 701 HOH HOH . N 8 HOH A 2 702 702 HOH HOH . N 8 HOH A 3 703 703 HOH HOH . N 8 HOH A 4 704 704 HOH HOH . N 8 HOH A 5 705 705 HOH HOH . N 8 HOH A 6 706 706 HOH HOH . N 8 HOH A 7 707 707 HOH HOH . N 8 HOH A 8 708 708 HOH HOH . N 8 HOH A 9 709 709 HOH HOH . N 8 HOH A 10 710 710 HOH HOH . N 8 HOH A 11 711 711 HOH HOH . N 8 HOH A 12 712 712 HOH HOH . N 8 HOH A 13 713 713 HOH HOH . N 8 HOH A 14 714 714 HOH HOH . N 8 HOH A 15 715 715 HOH HOH . N 8 HOH A 16 716 716 HOH HOH . N 8 HOH A 17 717 717 HOH HOH . N 8 HOH A 18 718 718 HOH HOH . N 8 HOH A 19 719 719 HOH HOH . N 8 HOH A 20 720 720 HOH HOH . N 8 HOH A 21 721 721 HOH HOH . N 8 HOH A 22 722 722 HOH HOH . N 8 HOH A 23 723 723 HOH HOH . N 8 HOH A 24 724 724 HOH HOH . N 8 HOH A 25 725 725 HOH HOH . N 8 HOH A 26 726 726 HOH HOH . N 8 HOH A 27 727 727 HOH HOH . N 8 HOH A 28 728 728 HOH HOH . N 8 HOH A 29 729 729 HOH HOH . N 8 HOH A 30 730 730 HOH HOH . N 8 HOH A 31 731 731 HOH HOH . N 8 HOH A 32 732 732 HOH HOH . N 8 HOH A 33 733 733 HOH HOH . N 8 HOH A 34 734 734 HOH HOH . N 8 HOH A 35 735 735 HOH HOH . N 8 HOH A 36 736 736 HOH HOH . N 8 HOH A 37 737 737 HOH HOH . N 8 HOH A 38 738 738 HOH HOH . N 8 HOH A 39 739 739 HOH HOH . N 8 HOH A 40 740 740 HOH HOH . N 8 HOH A 41 741 741 HOH HOH . N 8 HOH A 42 742 742 HOH HOH . N 8 HOH A 43 743 743 HOH HOH . N 8 HOH A 44 744 744 HOH HOH . N 8 HOH A 45 745 745 HOH HOH . N 8 HOH A 46 746 746 HOH HOH . N 8 HOH A 47 747 747 HOH HOH . N 8 HOH A 48 748 748 HOH HOH . N 8 HOH A 49 749 749 HOH HOH . N 8 HOH A 50 750 750 HOH HOH . N 8 HOH A 51 751 751 HOH HOH . N 8 HOH A 52 752 752 HOH HOH . N 8 HOH A 53 753 753 HOH HOH . N 8 HOH A 54 754 754 HOH HOH . N 8 HOH A 55 755 755 HOH HOH . N 8 HOH A 56 756 756 HOH HOH . N 8 HOH A 57 757 757 HOH HOH . N 8 HOH A 58 758 758 HOH HOH . N 8 HOH A 59 759 759 HOH HOH . N 8 HOH A 60 760 760 HOH HOH . N 8 HOH A 61 761 761 HOH HOH . N 8 HOH A 62 762 762 HOH HOH . N 8 HOH A 63 763 763 HOH HOH . N 8 HOH A 64 764 764 HOH HOH . N 8 HOH A 65 765 765 HOH HOH . N 8 HOH A 66 766 766 HOH HOH . N 8 HOH A 67 767 767 HOH HOH . N 8 HOH A 68 768 768 HOH HOH . N 8 HOH A 69 769 769 HOH HOH . N 8 HOH A 70 770 770 HOH HOH . N 8 HOH A 71 771 771 HOH HOH . N 8 HOH A 72 772 772 HOH HOH . N 8 HOH A 73 773 773 HOH HOH . N 8 HOH A 74 774 774 HOH HOH . N 8 HOH A 75 775 775 HOH HOH . N 8 HOH A 76 776 776 HOH HOH . N 8 HOH A 77 777 777 HOH HOH . N 8 HOH A 78 778 778 HOH HOH . N 8 HOH A 79 779 779 HOH HOH . N 8 HOH A 80 780 780 HOH HOH . N 8 HOH A 81 781 781 HOH HOH . N 8 HOH A 82 782 782 HOH HOH . N 8 HOH A 83 783 783 HOH HOH . N 8 HOH A 84 784 784 HOH HOH . N 8 HOH A 85 785 785 HOH HOH . N 8 HOH A 86 786 786 HOH HOH . O 8 HOH B 1 701 701 HOH HOH . O 8 HOH B 2 702 702 HOH HOH . O 8 HOH B 3 703 703 HOH HOH . O 8 HOH B 4 704 704 HOH HOH . O 8 HOH B 5 705 705 HOH HOH . O 8 HOH B 6 706 706 HOH HOH . O 8 HOH B 7 707 707 HOH HOH . O 8 HOH B 8 708 708 HOH HOH . O 8 HOH B 9 709 709 HOH HOH . O 8 HOH B 10 710 710 HOH HOH . O 8 HOH B 11 711 711 HOH HOH . O 8 HOH B 12 712 712 HOH HOH . O 8 HOH B 13 713 713 HOH HOH . O 8 HOH B 14 714 714 HOH HOH . O 8 HOH B 15 715 715 HOH HOH . O 8 HOH B 16 716 716 HOH HOH . O 8 HOH B 17 717 717 HOH HOH . O 8 HOH B 18 718 718 HOH HOH . O 8 HOH B 19 719 719 HOH HOH . O 8 HOH B 20 720 720 HOH HOH . O 8 HOH B 21 721 721 HOH HOH . O 8 HOH B 22 722 722 HOH HOH . O 8 HOH B 23 723 723 HOH HOH . O 8 HOH B 24 724 724 HOH HOH . O 8 HOH B 25 725 725 HOH HOH . O 8 HOH B 26 726 726 HOH HOH . O 8 HOH B 27 727 727 HOH HOH . O 8 HOH B 28 728 728 HOH HOH . O 8 HOH B 29 729 729 HOH HOH . O 8 HOH B 30 730 730 HOH HOH . O 8 HOH B 31 731 731 HOH HOH . O 8 HOH B 32 732 732 HOH HOH . O 8 HOH B 33 733 733 HOH HOH . O 8 HOH B 34 734 734 HOH HOH . O 8 HOH B 35 735 735 HOH HOH . O 8 HOH B 36 736 736 HOH HOH . O 8 HOH B 37 737 737 HOH HOH . O 8 HOH B 38 738 738 HOH HOH . O 8 HOH B 39 739 739 HOH HOH . O 8 HOH B 40 740 740 HOH HOH . O 8 HOH B 41 741 741 HOH HOH . O 8 HOH B 42 742 742 HOH HOH . O 8 HOH B 43 743 743 HOH HOH . O 8 HOH B 44 744 744 HOH HOH . O 8 HOH B 45 745 745 HOH HOH . O 8 HOH B 46 746 746 HOH HOH . O 8 HOH B 47 747 747 HOH HOH . O 8 HOH B 48 748 748 HOH HOH . O 8 HOH B 49 749 749 HOH HOH . O 8 HOH B 50 750 750 HOH HOH . O 8 HOH B 51 751 751 HOH HOH . O 8 HOH B 52 752 752 HOH HOH . O 8 HOH B 53 753 753 HOH HOH . O 8 HOH B 54 754 754 HOH HOH . O 8 HOH B 55 755 755 HOH HOH . O 8 HOH B 56 756 756 HOH HOH . O 8 HOH B 57 757 757 HOH HOH . O 8 HOH B 58 758 758 HOH HOH . O 8 HOH B 59 759 759 HOH HOH . O 8 HOH B 60 760 760 HOH HOH . O 8 HOH B 61 761 761 HOH HOH . O 8 HOH B 62 762 762 HOH HOH . O 8 HOH B 63 763 763 HOH HOH . O 8 HOH B 64 764 764 HOH HOH . O 8 HOH B 65 765 765 HOH HOH . O 8 HOH B 66 766 766 HOH HOH . O 8 HOH B 67 767 767 HOH HOH . O 8 HOH B 68 768 768 HOH HOH . O 8 HOH B 69 769 769 HOH HOH . O 8 HOH B 70 770 770 HOH HOH . O 8 HOH B 71 771 771 HOH HOH . O 8 HOH B 72 772 772 HOH HOH . O 8 HOH B 73 773 773 HOH HOH . O 8 HOH B 74 774 774 HOH HOH . O 8 HOH B 75 775 775 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 P PB ADP . . . I 3 -21.032 30.263 55.7 1 31.31 ? PB ADP 602 B 1 HETATM 2 O O1B ADP . . . I 3 -20.588 31.276 56.732 1 28.48 ? O1B ADP 602 B 1 HETATM 3 O O2B ADP . . . I 3 -22.489 29.838 55.951 1 30.98 ? O2B ADP 602 B 1 HETATM 4 O O3B ADP . . . I 3 -20.036 29.199 55.375 1 34.77 ? O3B ADP 602 B 1 HETATM 5 P PA ADP . . . I 3 -19.823 31.891 53.748 1 28.99 ? PA ADP 602 B 1 HETATM 6 O O1A ADP . . . I 3 -20.061 33.332 54.063 1 26.69 ? O1A ADP 602 B 1 HETATM 7 O O2A ADP . . . I 3 -18.574 31.221 54.304 1 24.67 ? O2A ADP 602 B 1 HETATM 8 O O3A ADP . . . I 3 -21.095 31.075 54.281 1 29.09 ? O3A ADP 602 B 1 HETATM 9 O O5' ADP . . . I 3 -19.837 31.653 52.168 1 29.17 ? O5' ADP 602 B 1 HETATM 10 C C5' ADP . . . I 3 -19.354 30.402 51.718 1 32.37 ? C5' ADP 602 B 1 HETATM 11 C C4' ADP . . . I 3 -18.538 30.524 50.45 1 33.65 ? C4' ADP 602 B 1 HETATM 12 O O4' ADP . . . I 3 -19.355 31.018 49.39 1 35.53 ? O4' ADP 602 B 1 HETATM 13 C C3' ADP . . . I 3 -17.43 31.518 50.612 1 35.08 ? C3' ADP 602 B 1 HETATM 14 O O3' ADP . . . I 3 -16.407 31.134 49.691 1 37.7 ? O3' ADP 602 B 1 HETATM 15 C C2' ADP . . . I 3 -18.083 32.827 50.209 1 37.9 ? C2' ADP 602 B 1 HETATM 16 O O2' ADP . . . I 3 -17.17 33.863 49.817 1 40.04 ? O2' ADP 602 B 1 HETATM 17 C C1' ADP . . . I 3 -18.968 32.361 49.063 1 35.97 ? C1' ADP 602 B 1 HETATM 18 N N9 ADP . . . I 3 -20.185 33.188 48.906 1 36.93 ? N9 ADP 602 B 1 HETATM 19 C C8 ADP . . . I 3 -20.991 33.666 49.887 1 35.34 ? C8 ADP 602 B 1 HETATM 20 N N7 ADP . . . I 3 -22.004 34.366 49.333 1 36.24 ? N7 ADP 602 B 1 HETATM 21 C C5 ADP . . . I 3 -21.855 34.34 47.98 1 38.04 ? C5 ADP 602 B 1 HETATM 22 C C6 ADP . . . I 3 -22.582 34.864 46.788 1 38.51 ? C6 ADP 602 B 1 HETATM 23 N N6 ADP . . . I 3 -23.696 35.603 46.965 1 38.65 ? N6 ADP 602 B 1 HETATM 24 N N1 ADP . . . I 3 -22.082 34.614 45.545 1 37.46 ? N1 ADP 602 B 1 HETATM 25 C C2 ADP . . . I 3 -20.955 33.881 45.371 1 37.09 ? C2 ADP 602 B 1 HETATM 26 N N3 ADP . . . I 3 -20.262 33.361 46.404 1 37.26 ? N3 ADP 602 B 1 HETATM 27 C C4 ADP . . . I 3 -20.65 33.558 47.702 1 37.53 ? C4 ADP 602 B 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #