data_4YHJ
#
_model_server_result.job_id            mAYIpQ_-KVXZs3iwZQEhWA 
_model_server_result.datetime_utc      '2024-11-05 03:52:49' 
_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          4yhj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":601}' 
#
_entry.id    4YHJ 
#
_exptl.entry_id    4YHJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              426.216 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'AMP PHOSPHORAMIDATE' 
_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         120 
_cell.entry_id            4YHJ 
_cell.length_a            104.838 
_cell.length_b            104.838 
_cell.length_c            221.838 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4YHJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_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 
_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
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C10 H16 N6 O9 P2' 
_chem_comp.formula_weight    426.216 
_chem_comp.id                AN2 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'AMP PHOSPHORAMIDATE' 
_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
N3B PB AN2 sing 13 n n 
N3B H3B1 AN2 sing 14 n n 
N3B H3B2 AN2 sing 15 n n 
PB O2B AN2 sing 16 n n 
PB O1B AN2 doub 17 n n 
PB O3A AN2 sing 18 n n 
O2B HO2B AN2 sing 19 n n 
O3A PA AN2 sing 20 n n 
PA O1A AN2 doub 21 n n 
PA O2A AN2 sing 22 n n 
PA O5' AN2 sing 23 n n 
O2A HO2A AN2 sing 24 n n 
O5' C5' AN2 sing 25 n n 
C5' C4' AN2 sing 26 n n 
C5' "H5'1" AN2 sing 27 n n 
C5' "H5'2" AN2 sing 28 n n 
C4' O4' AN2 sing 29 n n 
C4' C3' AN2 sing 30 n n 
C4' H4' AN2 sing 31 n n 
O4' C1' AN2 sing 32 n n 
C3' O3' AN2 sing 33 n n 
C3' C2' AN2 sing 34 n n 
C3' H3' AN2 sing 35 n n 
O3' HA AN2 sing 36 n n 
C2' O2' AN2 sing 37 n n 
C2' C1' AN2 sing 38 n n 
C2' H2' AN2 sing 39 n n 
O2' HB AN2 sing 40 n n 
C1' N9 AN2 sing 41 n n 
C1' H1' AN2 sing 42 n n 
N9 C8 AN2 sing 43 n y 
N9 C4 AN2 sing 44 n y 
C8 N7 AN2 doub 45 n y 
C8 H8 AN2 sing 46 n n 
N7 C5 AN2 sing 47 n y 
C5 C4 AN2 doub 48 n y 
C5 C6 AN2 sing 49 n y 
C4 N3 AN2 sing 50 n y 
N3 C2 AN2 doub 51 n y 
C2 N1 AN2 sing 52 n y 
C2 H2 AN2 sing 53 n n 
N1 C6 AN2 doub 54 n y 
C6 N6 AN2 sing 55 n n 
N6 H6N1 AN2 sing 56 n n 
N6 H6N2 AN2 sing 57 n n 
#
_atom_sites.entry_id                     4YHJ 
_atom_sites.fract_transf_matrix[1][1]    0.009539 
_atom_sites.fract_transf_matrix[1][2]    0.005507 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011014 
_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]    0.004508 
_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 AN2 A 1 601 1 AN2 AN2 . 
D 2 AN2 B 1 601 2 AN2 AN2 . 
E 3 HOH A 1 701 16 HOH HOH . 
E 3 HOH A 2 702 37 HOH HOH . 
E 3 HOH A 3 703 34 HOH HOH . 
E 3 HOH A 4 704 89 HOH HOH . 
E 3 HOH A 5 705 96 HOH HOH . 
E 3 HOH A 6 706 45 HOH HOH . 
E 3 HOH A 7 707 54 HOH HOH . 
E 3 HOH A 8 708 4 HOH HOH . 
E 3 HOH A 9 709 5 HOH HOH . 
E 3 HOH A 10 710 7 HOH HOH . 
E 3 HOH A 11 711 8 HOH HOH . 
E 3 HOH A 12 712 9 HOH HOH . 
E 3 HOH A 13 713 10 HOH HOH . 
E 3 HOH A 14 714 13 HOH HOH . 
E 3 HOH A 15 715 14 HOH HOH . 
E 3 HOH A 16 716 17 HOH HOH . 
E 3 HOH A 17 717 18 HOH HOH . 
E 3 HOH A 18 718 24 HOH HOH . 
E 3 HOH A 19 719 26 HOH HOH . 
E 3 HOH A 20 720 28 HOH HOH . 
E 3 HOH A 21 721 33 HOH HOH . 
E 3 HOH A 22 722 38 HOH HOH . 
E 3 HOH A 23 723 39 HOH HOH . 
E 3 HOH A 24 724 41 HOH HOH . 
E 3 HOH A 25 725 43 HOH HOH . 
E 3 HOH A 26 726 44 HOH HOH . 
E 3 HOH A 27 727 46 HOH HOH . 
E 3 HOH A 28 728 47 HOH HOH . 
E 3 HOH A 29 729 48 HOH HOH . 
E 3 HOH A 30 730 49 HOH HOH . 
E 3 HOH A 31 731 55 HOH HOH . 
E 3 HOH A 32 732 56 HOH HOH . 
E 3 HOH A 33 733 57 HOH HOH . 
E 3 HOH A 34 734 60 HOH HOH . 
E 3 HOH A 35 735 63 HOH HOH . 
E 3 HOH A 36 736 65 HOH HOH . 
E 3 HOH A 37 737 66 HOH HOH . 
E 3 HOH A 38 738 67 HOH HOH . 
E 3 HOH A 39 739 68 HOH HOH . 
E 3 HOH A 40 740 70 HOH HOH . 
E 3 HOH A 41 741 71 HOH HOH . 
E 3 HOH A 42 742 76 HOH HOH . 
E 3 HOH A 43 743 78 HOH HOH . 
E 3 HOH A 44 744 83 HOH HOH . 
E 3 HOH A 45 745 87 HOH HOH . 
E 3 HOH A 46 746 91 HOH HOH . 
E 3 HOH A 47 747 92 HOH HOH . 
E 3 HOH A 48 748 93 HOH HOH . 
E 3 HOH A 49 749 94 HOH HOH . 
E 3 HOH A 50 750 97 HOH HOH . 
E 3 HOH A 51 751 100 HOH HOH . 
E 3 HOH A 52 752 104 HOH HOH . 
E 3 HOH A 53 753 105 HOH HOH . 
E 3 HOH A 54 754 106 HOH HOH . 
E 3 HOH A 55 755 109 HOH HOH . 
E 3 HOH A 56 756 113 HOH HOH . 
E 3 HOH A 57 757 117 HOH HOH . 
E 3 HOH A 58 758 119 HOH HOH . 
E 3 HOH A 59 759 120 HOH HOH . 
E 3 HOH A 60 760 121 HOH HOH . 
E 3 HOH A 61 761 122 HOH HOH . 
E 3 HOH A 62 762 123 HOH HOH . 
F 3 HOH B 1 701 3 HOH HOH . 
F 3 HOH B 2 702 112 HOH HOH . 
F 3 HOH B 3 703 72 HOH HOH . 
F 3 HOH B 4 704 75 HOH HOH . 
F 3 HOH B 5 705 1 HOH HOH . 
F 3 HOH B 6 706 2 HOH HOH . 
F 3 HOH B 7 707 6 HOH HOH . 
F 3 HOH B 8 708 11 HOH HOH . 
F 3 HOH B 9 709 12 HOH HOH . 
F 3 HOH B 10 710 15 HOH HOH . 
F 3 HOH B 11 711 19 HOH HOH . 
F 3 HOH B 12 712 20 HOH HOH . 
F 3 HOH B 13 713 21 HOH HOH . 
F 3 HOH B 14 714 22 HOH HOH . 
F 3 HOH B 15 715 23 HOH HOH . 
F 3 HOH B 16 716 25 HOH HOH . 
F 3 HOH B 17 717 27 HOH HOH . 
F 3 HOH B 18 718 29 HOH HOH . 
F 3 HOH B 19 719 30 HOH HOH . 
F 3 HOH B 20 720 31 HOH HOH . 
F 3 HOH B 21 721 32 HOH HOH . 
F 3 HOH B 22 722 35 HOH HOH . 
F 3 HOH B 23 723 36 HOH HOH . 
F 3 HOH B 24 724 40 HOH HOH . 
F 3 HOH B 25 725 42 HOH HOH . 
F 3 HOH B 26 726 50 HOH HOH . 
F 3 HOH B 27 727 51 HOH HOH . 
F 3 HOH B 28 728 52 HOH HOH . 
F 3 HOH B 29 729 53 HOH HOH . 
F 3 HOH B 30 730 58 HOH HOH . 
F 3 HOH B 31 731 59 HOH HOH . 
F 3 HOH B 32 732 61 HOH HOH . 
F 3 HOH B 33 733 62 HOH HOH . 
F 3 HOH B 34 734 64 HOH HOH . 
F 3 HOH B 35 735 69 HOH HOH . 
F 3 HOH B 36 736 73 HOH HOH . 
F 3 HOH B 37 737 74 HOH HOH . 
F 3 HOH B 38 738 77 HOH HOH . 
F 3 HOH B 39 739 79 HOH HOH . 
F 3 HOH B 40 740 80 HOH HOH . 
F 3 HOH B 41 741 81 HOH HOH . 
F 3 HOH B 42 742 82 HOH HOH . 
F 3 HOH B 43 743 84 HOH HOH . 
F 3 HOH B 44 744 85 HOH HOH . 
F 3 HOH B 45 745 86 HOH HOH . 
F 3 HOH B 46 746 88 HOH HOH . 
F 3 HOH B 47 747 90 HOH HOH . 
F 3 HOH B 48 748 95 HOH HOH . 
F 3 HOH B 49 749 98 HOH HOH . 
F 3 HOH B 50 750 99 HOH HOH . 
F 3 HOH B 51 751 101 HOH HOH . 
F 3 HOH B 52 752 102 HOH HOH . 
F 3 HOH B 53 753 103 HOH HOH . 
F 3 HOH B 54 754 107 HOH HOH . 
F 3 HOH B 55 755 108 HOH HOH . 
F 3 HOH B 56 756 110 HOH HOH . 
F 3 HOH B 57 757 111 HOH HOH . 
F 3 HOH B 58 758 114 HOH HOH . 
F 3 HOH B 59 759 115 HOH HOH . 
F 3 HOH B 60 760 116 HOH HOH . 
F 3 HOH B 61 761 118 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 N3B AN2 . . . C 2 33.647 30.292 41.687 1 88.54 ? N3B AN2 601 A 1 
HETATM 2 P PB AN2 . . . C 2 34.106 28.78 41.375 1 89.08 ? PB AN2 601 A 1 
HETATM 3 O O2B AN2 . . . C 2 33.871 27.89 42.704 1 88.19 ? O2B AN2 601 A 1 
HETATM 4 O O1B AN2 . . . C 2 35.544 28.777 40.999 1 88.95 ? O1B AN2 601 A 1 
HETATM 5 O O3A AN2 . . . C 2 33.224 28.143 40.164 1 86.33 ? O3A AN2 601 A 1 
HETATM 6 P PA AN2 . . . C 2 33.358 28.896 38.725 1 80.56 ? PA AN2 601 A 1 
HETATM 7 O O1A AN2 . . . C 2 32.173 29.776 38.562 1 78.99 ? O1A AN2 601 A 1 
HETATM 8 O O2A AN2 . . . C 2 34.721 29.769 38.602 1 79.4 ? O2A AN2 601 A 1 
HETATM 9 O O5' AN2 . . . C 2 33.269 27.757 37.575 1 76.79 ? O5' AN2 601 A 1 
HETATM 10 C C5' AN2 . . . C 2 34.538 27.479 36.971 1 73.14 ? C5' AN2 601 A 1 
HETATM 11 C C4' AN2 . . . C 2 34.377 27.298 35.451 1 70.3 ? C4' AN2 601 A 1 
HETATM 12 O O4' AN2 . . . C 2 33.319 26.356 35.106 1 67.96 ? O4' AN2 601 A 1 
HETATM 13 C C3' AN2 . . . C 2 34.002 28.617 34.735 1 69.76 ? C3' AN2 601 A 1 
HETATM 14 O O3' AN2 . . . C 2 35.143 29.438 34.469 1 69.3 ? O3' AN2 601 A 1 
HETATM 15 C C2' AN2 . . . C 2 33.378 28.076 33.431 1 70.58 ? C2' AN2 601 A 1 
HETATM 16 O O2' AN2 . . . C 2 34.373 27.609 32.508 1 73.86 ? O2' AN2 601 A 1 
HETATM 17 C C1' AN2 . . . C 2 32.558 26.887 33.98 1 66.56 ? C1' AN2 601 A 1 
HETATM 18 N N9 AN2 . . . C 2 31.181 27.318 34.321 1 58.71 ? N9 AN2 601 A 1 
HETATM 19 C C8 AN2 . . . C 2 30.747 27.785 35.531 1 53.68 ? C8 AN2 601 A 1 
HETATM 20 N N7 AN2 . . . C 2 29.485 28.073 35.466 1 51.33 ? N7 AN2 601 A 1 
HETATM 21 C C5 AN2 . . . C 2 29.017 27.827 34.209 1 51.52 ? C5 AN2 601 A 1 
HETATM 22 C C4 AN2 . . . C 2 30.102 27.337 33.46 1 52.78 ? C4 AN2 601 A 1 
HETATM 23 N N3 AN2 . . . C 2 29.904 27.012 32.173 1 51.21 ? N3 AN2 601 A 1 
HETATM 24 C C2 AN2 . . . C 2 28.718 27.137 31.595 1 51.44 ? C2 AN2 601 A 1 
HETATM 25 N N1 AN2 . . . C 2 27.665 27.583 32.266 1 52.49 ? N1 AN2 601 A 1 
HETATM 26 C C6 AN2 . . . C 2 27.757 27.943 33.557 1 51.54 ? C6 AN2 601 A 1 
HETATM 27 N N6 AN2 . . . C 2 26.641 28.406 34.239 1 48.61 ? N6 AN2 601 A 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           219 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           27 
#