data_6XUH # _model_server_result.job_id yfHiZHYKTaZm9PzARbWvig _model_server_result.datetime_utc '2024-10-16 21:26:55' _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 6xuh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":600}' # _entry.id 6XUH # _exptl.entry_id 6XUH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 288.192 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R,3R,4S)-5-((2-aminoethyl)amino)-2,3,4-trihydroxy-5-oxopentyl dihydrogen 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 6XUH _cell.length_a 96.11 _cell.length_b 96.11 _cell.length_c 271.45 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XUH _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # 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 dimeric 2 author_and_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,E,F,I,J 1 1 C,D,G,H,K,L 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 F N N ? 3 H N N # _chem_comp.formula 'C7 H17 N2 O8 P' _chem_comp.formula_weight 288.192 _chem_comp.id O1B _chem_comp.mon_nstd_flag . _chem_comp.name '(2R,3R,4S)-5-((2-aminoethyl)amino)-2,3,4-trihydroxy-5-oxopentyl dihydrogen phosphate' _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 N C O1B sing 237 n n C C1 O1B sing 238 n n C1 N1 O1B sing 239 n n N1 C2 O1B sing 240 n n O6 P O1B doub 241 n n O C2 O1B doub 242 n n O2 C4 O1B sing 243 n n C2 C3 O1B sing 244 n n O5 P O1B sing 245 n n C4 C3 O1B sing 246 n n C4 C5 O1B sing 247 n n P O4 O1B sing 248 n n P O7 O1B sing 249 n n C3 O1 O1B sing 250 n n C6 O4 O1B sing 251 n n C6 C5 O1B sing 252 n n C5 O3 O1B sing 253 n n O3 H1 O1B sing 254 n n C4 H2 O1B sing 255 n n C5 H3 O1B sing 256 n n C6 H4 O1B sing 257 n n C6 H5 O1B sing 258 n n N1 H6 O1B sing 259 n n O5 H7 O1B sing 260 n n O7 H8 O1B sing 261 n n O2 H9 O1B sing 262 n n C3 H10 O1B sing 263 n n O1 H11 O1B sing 264 n n C1 H12 O1B sing 265 n n C1 H13 O1B sing 266 n n C H14 O1B sing 267 n n C H15 O1B sing 268 n n N H16 O1B sing 269 n n N H17 O1B sing 270 n n # _atom_sites.entry_id 6XUH _atom_sites.fract_transf_matrix[1][1] 0.010405 _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] 0.010405 _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] 0.003684 _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 E 2 PA5 A 1 600 600 PA5 PA5 . F 3 O1B B 1 600 600 O1B XXX . G 2 PA5 C 1 600 600 PA5 PA5 . H 3 O1B D 1 600 600 O1B XXX . I 4 HOH A 1 701 102 HOH HOH . I 4 HOH A 2 702 264 HOH HOH . I 4 HOH A 3 703 47 HOH HOH . I 4 HOH A 4 704 69 HOH HOH . I 4 HOH A 5 705 135 HOH HOH . I 4 HOH A 6 706 240 HOH HOH . I 4 HOH A 7 707 61 HOH HOH . I 4 HOH A 8 708 261 HOH HOH . I 4 HOH A 9 709 125 HOH HOH . I 4 HOH A 10 710 5 HOH HOH . I 4 HOH A 11 711 194 HOH HOH . I 4 HOH A 12 712 215 HOH HOH . I 4 HOH A 13 713 234 HOH HOH . I 4 HOH A 14 714 180 HOH HOH . I 4 HOH A 15 715 6 HOH HOH . I 4 HOH A 16 716 148 HOH HOH . I 4 HOH A 17 717 21 HOH HOH . I 4 HOH A 18 718 166 HOH HOH . I 4 HOH A 19 719 38 HOH HOH . I 4 HOH A 20 720 11 HOH HOH . I 4 HOH A 21 721 182 HOH HOH . I 4 HOH A 22 722 36 HOH HOH . I 4 HOH A 23 723 7 HOH HOH . I 4 HOH A 24 724 230 HOH HOH . I 4 HOH A 25 725 167 HOH HOH . I 4 HOH A 26 726 2 HOH HOH . I 4 HOH A 27 727 204 HOH HOH . I 4 HOH A 28 728 63 HOH HOH . I 4 HOH A 29 729 210 HOH HOH . I 4 HOH A 30 730 79 HOH HOH . I 4 HOH A 31 731 13 HOH HOH . I 4 HOH A 32 732 68 HOH HOH . I 4 HOH A 33 733 91 HOH HOH . I 4 HOH A 34 734 271 HOH HOH . I 4 HOH A 35 735 243 HOH HOH . I 4 HOH A 36 736 113 HOH HOH . I 4 HOH A 37 737 187 HOH HOH . I 4 HOH A 38 738 122 HOH HOH . I 4 HOH A 39 739 22 HOH HOH . I 4 HOH A 40 740 256 HOH HOH . I 4 HOH A 41 741 33 HOH HOH . I 4 HOH A 42 742 73 HOH HOH . I 4 HOH A 43 743 31 HOH HOH . I 4 HOH A 44 744 71 HOH HOH . I 4 HOH A 45 745 40 HOH HOH . I 4 HOH A 46 746 242 HOH HOH . I 4 HOH A 47 747 107 HOH HOH . I 4 HOH A 48 748 191 HOH HOH . I 4 HOH A 49 749 147 HOH HOH . I 4 HOH A 50 750 200 HOH HOH . I 4 HOH A 51 751 114 HOH HOH . I 4 HOH A 52 752 211 HOH HOH . I 4 HOH A 53 753 245 HOH HOH . I 4 HOH A 54 754 216 HOH HOH . I 4 HOH A 55 755 226 HOH HOH . I 4 HOH A 56 756 88 HOH HOH . I 4 HOH A 57 757 265 HOH HOH . I 4 HOH A 58 758 202 HOH HOH . I 4 HOH A 59 759 161 HOH HOH . I 4 HOH A 60 760 218 HOH HOH . I 4 HOH A 61 761 233 HOH HOH . I 4 HOH A 62 762 52 HOH HOH . I 4 HOH A 63 763 241 HOH HOH . I 4 HOH A 64 764 105 HOH HOH . I 4 HOH A 65 765 185 HOH HOH . I 4 HOH A 66 766 92 HOH HOH . I 4 HOH A 67 767 43 HOH HOH . I 4 HOH A 68 768 268 HOH HOH . I 4 HOH A 69 769 224 HOH HOH . I 4 HOH A 70 770 195 HOH HOH . I 4 HOH A 71 771 253 HOH HOH . I 4 HOH A 72 772 18 HOH HOH . I 4 HOH A 73 773 186 HOH HOH . I 4 HOH A 74 774 154 HOH HOH . I 4 HOH A 75 775 203 HOH HOH . I 4 HOH A 76 776 56 HOH HOH . I 4 HOH A 77 777 266 HOH HOH . I 4 HOH A 78 778 238 HOH HOH . I 4 HOH A 79 779 134 HOH HOH . I 4 HOH A 80 780 46 HOH HOH . I 4 HOH A 81 781 17 HOH HOH . I 4 HOH A 82 782 257 HOH HOH . I 4 HOH A 83 783 136 HOH HOH . I 4 HOH A 84 784 170 HOH HOH . I 4 HOH A 85 785 55 HOH HOH . I 4 HOH A 86 786 157 HOH HOH . I 4 HOH A 87 787 162 HOH HOH . J 4 HOH B 1 701 156 HOH HOH . J 4 HOH B 2 702 62 HOH HOH . J 4 HOH B 3 703 247 HOH HOH . J 4 HOH B 4 704 8 HOH HOH . J 4 HOH B 5 705 222 HOH HOH . J 4 HOH B 6 706 53 HOH HOH . J 4 HOH B 7 707 181 HOH HOH . J 4 HOH B 8 708 172 HOH HOH . J 4 HOH B 9 709 206 HOH HOH . J 4 HOH B 10 710 141 HOH HOH . J 4 HOH B 11 711 151 HOH HOH . J 4 HOH B 12 712 106 HOH HOH . J 4 HOH B 13 713 4 HOH HOH . J 4 HOH B 14 714 10 HOH HOH . J 4 HOH B 15 715 144 HOH HOH . J 4 HOH B 16 716 42 HOH HOH . J 4 HOH B 17 717 96 HOH HOH . J 4 HOH B 18 718 39 HOH HOH . J 4 HOH B 19 719 214 HOH HOH . J 4 HOH B 20 720 58 HOH HOH . J 4 HOH B 21 721 23 HOH HOH . J 4 HOH B 22 722 20 HOH HOH . J 4 HOH B 23 723 146 HOH HOH . J 4 HOH B 24 724 90 HOH HOH . J 4 HOH B 25 725 15 HOH HOH . J 4 HOH B 26 726 228 HOH HOH . J 4 HOH B 27 727 213 HOH HOH . J 4 HOH B 28 728 153 HOH HOH . J 4 HOH B 29 729 57 HOH HOH . J 4 HOH B 30 730 229 HOH HOH . J 4 HOH B 31 731 41 HOH HOH . J 4 HOH B 32 732 117 HOH HOH . J 4 HOH B 33 733 270 HOH HOH . J 4 HOH B 34 734 145 HOH HOH . J 4 HOH B 35 735 190 HOH HOH . J 4 HOH B 36 736 28 HOH HOH . J 4 HOH B 37 737 111 HOH HOH . J 4 HOH B 38 738 140 HOH HOH . J 4 HOH B 39 739 142 HOH HOH . J 4 HOH B 40 740 197 HOH HOH . J 4 HOH B 41 741 231 HOH HOH . J 4 HOH B 42 742 150 HOH HOH . J 4 HOH B 43 743 263 HOH HOH . J 4 HOH B 44 744 16 HOH HOH . J 4 HOH B 45 745 100 HOH HOH . J 4 HOH B 46 746 184 HOH HOH . J 4 HOH B 47 747 128 HOH HOH . J 4 HOH B 48 748 1 HOH HOH . J 4 HOH B 49 749 35 HOH HOH . J 4 HOH B 50 750 165 HOH HOH . J 4 HOH B 51 751 81 HOH HOH . J 4 HOH B 52 752 76 HOH HOH . J 4 HOH B 53 753 227 HOH HOH . J 4 HOH B 54 754 84 HOH HOH . J 4 HOH B 55 755 14 HOH HOH . J 4 HOH B 56 756 74 HOH HOH . J 4 HOH B 57 757 54 HOH HOH . J 4 HOH B 58 758 119 HOH HOH . J 4 HOH B 59 759 72 HOH HOH . J 4 HOH B 60 760 32 HOH HOH . J 4 HOH B 61 761 239 HOH HOH . J 4 HOH B 62 762 201 HOH HOH . J 4 HOH B 63 763 246 HOH HOH . J 4 HOH B 64 764 254 HOH HOH . J 4 HOH B 65 765 169 HOH HOH . J 4 HOH B 66 766 121 HOH HOH . J 4 HOH B 67 767 138 HOH HOH . J 4 HOH B 68 768 149 HOH HOH . J 4 HOH B 69 769 60 HOH HOH . J 4 HOH B 70 770 48 HOH HOH . J 4 HOH B 71 771 123 HOH HOH . J 4 HOH B 72 772 3 HOH HOH . J 4 HOH B 73 773 83 HOH HOH . J 4 HOH B 74 774 152 HOH HOH . J 4 HOH B 75 775 93 HOH HOH . J 4 HOH B 76 776 34 HOH HOH . J 4 HOH B 77 777 109 HOH HOH . J 4 HOH B 78 778 124 HOH HOH . J 4 HOH B 79 779 208 HOH HOH . J 4 HOH B 80 780 198 HOH HOH . J 4 HOH B 81 781 220 HOH HOH . J 4 HOH B 82 782 127 HOH HOH . J 4 HOH B 83 783 78 HOH HOH . J 4 HOH B 84 784 177 HOH HOH . J 4 HOH B 85 785 86 HOH HOH . J 4 HOH B 86 786 131 HOH HOH . J 4 HOH B 87 787 189 HOH HOH . J 4 HOH B 88 788 50 HOH HOH . J 4 HOH B 89 789 205 HOH HOH . J 4 HOH B 90 790 174 HOH HOH . J 4 HOH B 91 791 225 HOH HOH . J 4 HOH B 92 792 120 HOH HOH . J 4 HOH B 93 793 49 HOH HOH . J 4 HOH B 94 794 26 HOH HOH . J 4 HOH B 95 795 59 HOH HOH . J 4 HOH B 96 796 235 HOH HOH . K 4 HOH C 1 701 260 HOH HOH . K 4 HOH C 2 702 24 HOH HOH . K 4 HOH C 3 703 188 HOH HOH . K 4 HOH C 4 704 99 HOH HOH . K 4 HOH C 5 705 77 HOH HOH . K 4 HOH C 6 706 160 HOH HOH . K 4 HOH C 7 707 19 HOH HOH . K 4 HOH C 8 708 85 HOH HOH . K 4 HOH C 9 709 179 HOH HOH . K 4 HOH C 10 710 212 HOH HOH . K 4 HOH C 11 711 118 HOH HOH . K 4 HOH C 12 712 137 HOH HOH . K 4 HOH C 13 713 98 HOH HOH . K 4 HOH C 14 714 252 HOH HOH . K 4 HOH C 15 715 70 HOH HOH . K 4 HOH C 16 716 158 HOH HOH . K 4 HOH C 17 717 110 HOH HOH . K 4 HOH C 18 718 66 HOH HOH . K 4 HOH C 19 719 262 HOH HOH . K 4 HOH C 20 720 155 HOH HOH . K 4 HOH C 21 721 94 HOH HOH . K 4 HOH C 22 722 80 HOH HOH . K 4 HOH C 23 723 223 HOH HOH . K 4 HOH C 24 724 209 HOH HOH . K 4 HOH C 25 725 65 HOH HOH . K 4 HOH C 26 726 126 HOH HOH . K 4 HOH C 27 727 143 HOH HOH . K 4 HOH C 28 728 250 HOH HOH . K 4 HOH C 29 729 82 HOH HOH . K 4 HOH C 30 730 67 HOH HOH . K 4 HOH C 31 731 173 HOH HOH . K 4 HOH C 32 732 251 HOH HOH . K 4 HOH C 33 733 130 HOH HOH . K 4 HOH C 34 734 183 HOH HOH . K 4 HOH C 35 735 115 HOH HOH . K 4 HOH C 36 736 133 HOH HOH . K 4 HOH C 37 737 176 HOH HOH . K 4 HOH C 38 738 192 HOH HOH . K 4 HOH C 39 739 217 HOH HOH . K 4 HOH C 40 740 168 HOH HOH . K 4 HOH C 41 741 116 HOH HOH . L 4 HOH D 1 701 199 HOH HOH . L 4 HOH D 2 702 129 HOH HOH . L 4 HOH D 3 703 159 HOH HOH . L 4 HOH D 4 704 237 HOH HOH . L 4 HOH D 5 705 249 HOH HOH . L 4 HOH D 6 706 101 HOH HOH . L 4 HOH D 7 707 97 HOH HOH . L 4 HOH D 8 708 248 HOH HOH . L 4 HOH D 9 709 44 HOH HOH . L 4 HOH D 10 710 236 HOH HOH . L 4 HOH D 11 711 178 HOH HOH . L 4 HOH D 12 712 112 HOH HOH . L 4 HOH D 13 713 29 HOH HOH . L 4 HOH D 14 714 232 HOH HOH . L 4 HOH D 15 715 108 HOH HOH . L 4 HOH D 16 716 9 HOH HOH . L 4 HOH D 17 717 193 HOH HOH . L 4 HOH D 18 718 87 HOH HOH . L 4 HOH D 19 719 207 HOH HOH . L 4 HOH D 20 720 64 HOH HOH . L 4 HOH D 21 721 196 HOH HOH . L 4 HOH D 22 722 219 HOH HOH . L 4 HOH D 23 723 103 HOH HOH . L 4 HOH D 24 724 45 HOH HOH . L 4 HOH D 25 725 258 HOH HOH . L 4 HOH D 26 726 139 HOH HOH . L 4 HOH D 27 727 25 HOH HOH . L 4 HOH D 28 728 30 HOH HOH . L 4 HOH D 29 729 37 HOH HOH . L 4 HOH D 30 730 12 HOH HOH . L 4 HOH D 31 731 163 HOH HOH . L 4 HOH D 32 732 171 HOH HOH . L 4 HOH D 33 733 104 HOH HOH . L 4 HOH D 34 734 259 HOH HOH . L 4 HOH D 35 735 175 HOH HOH . L 4 HOH D 36 736 51 HOH HOH . L 4 HOH D 37 737 244 HOH HOH . L 4 HOH D 38 738 221 HOH HOH . L 4 HOH D 39 739 267 HOH HOH . L 4 HOH D 40 740 255 HOH HOH . L 4 HOH D 41 741 95 HOH HOH . L 4 HOH D 42 742 164 HOH HOH . L 4 HOH D 43 743 89 HOH HOH . L 4 HOH D 44 744 27 HOH HOH . L 4 HOH D 45 745 269 HOH HOH . L 4 HOH D 46 746 75 HOH HOH . L 4 HOH D 47 747 132 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 O3 O1B . . . H 3 -2.108 18.45 41.956 1 86.04 ? O3 O1B 600 D 1 HETATM 2 C C4 O1B . . . H 3 -1.89 17.366 44.087 1 95.35 ? C4 O1B 600 D 1 HETATM 3 C C5 O1B . . . H 3 -2.77 17.559 42.849 1 94.11 ? C5 O1B 600 D 1 HETATM 4 O O4 O1B . . . H 3 -3.987 19.491 43.608 1 96.28 ? O4 O1B 600 D 1 HETATM 5 C C6 O1B . . . H 3 -4.141 18.132 43.141 1 97.14 ? C6 O1B 600 D 1 HETATM 6 N N1 O1B . . . H 3 1.095 15.681 45.17 1 81.04 ? N1 O1B 600 D 1 HETATM 7 O O5 O1B . . . H 3 -4.345 21.31 45.307 1 109.77 ? O5 O1B 600 D 1 HETATM 8 O O6 O1B . . . H 3 -6.194 20.277 43.954 1 95.31 ? O6 O1B 600 D 1 HETATM 9 O O7 O1B . . . H 3 -5.224 18.996 45.801 1 89.03 ? O7 O1B 600 D 1 HETATM 10 P P O1B . . . H 3 -5.018 20.048 44.715 1 99.57 ? P O1B 600 D 1 HETATM 11 O O2 O1B . . . H 3 -2.601 16.805 45.191 1 101.21 ? O2 O1B 600 D 1 HETATM 12 C C3 O1B . . . H 3 -0.707 16.452 43.745 1 92.59 ? C3 O1B 600 D 1 HETATM 13 O O1 O1B . . . H 3 -1.072 15.094 43.867 1 87.79 ? O1 O1B 600 D 1 HETATM 14 C C2 O1B . . . H 3 0.452 16.739 44.682 1 92.75 ? C2 O1B 600 D 1 HETATM 15 O O O1B . . . H 3 0.728 17.897 44.989 1 109.35 ? O O1B 600 D 1 HETATM 16 C C1 O1B . . . H 3 0.87 15.222 46.53 1 80.56 ? C1 O1B 600 D 1 HETATM 17 C C O1B . . . H 3 1.396 16.25 47.542 1 77.63 ? C O1B 600 D 1 HETATM 18 N N O1B . . . H 3 1.844 15.533 48.691 1 63.59 ? N O1B 600 D 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 18 #