data_2XND
#
_model_server_result.job_id            gkE9pMfzW3g1FSb8wB_zDA 
_model_server_result.datetime_utc      '2024-11-04 22:31:47' 
_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          2xnd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":600}' 
#
_entry.id    2XND 
#
_exptl.entry_id    2XND 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              506.196 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    5 
_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            2XND 
_cell.length_a            155.74 
_cell.length_b            157.1 
_cell.length_c            247.27 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2XND 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    heptadecameric 
_pdbx_struct_assembly.oligomeric_count      17 
_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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA 
_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
? 7 R N N 
? 7 T N N 
? 7 W N N 
? 7 Y N N 
? 7 BA 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 158 A THR 176 1_555 S MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
metalc ? metalc2 R O2B ANP . A ANP 600 1_555 S MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? 
metalc ? metalc3 R O2G ANP . A ANP 600 1_555 S MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
metalc ? metalc4 B OG1 THR 158 B THR 176 1_555 U MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
metalc ? metalc5 T O2G ANP . B ANP 600 1_555 U MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? 
metalc ? metalc6 T O2B ANP . B ANP 600 1_555 U MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc7 C OG1 THR 158 C THR 176 1_555 X MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? 
metalc ? metalc8 W O2B ANP . C ANP 600 1_555 X MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? 
metalc ? metalc9 W O2G ANP . C ANP 600 1_555 X MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc10 D OG1 THR 155 D THR 163 1_555 Z MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
metalc ? metalc11 D OE1 GLU 180 D GLU 188 1_555 Z MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.878 ? 
metalc ? metalc12 Y O2G ANP . D ANP 600 1_555 Z MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? 
metalc ? metalc13 Y O2B ANP . D ANP 600 1_555 Z MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? 
metalc ? metalc14 F OG1 THR 155 F THR 163 1_555 CA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? 
metalc ? metalc15 BA O2G ANP . F ANP 600 1_555 CA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? 
metalc ? metalc16 BA O2B ANP . F ANP 600 1_555 CA MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? 
#
_chem_comp.formula           'C10 H17 N6 O12 P3' 
_chem_comp.formula_weight    506.196 
_chem_comp.id                ANP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' 
_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
PG O1G ANP doub 13 n n 
PG O2G ANP sing 14 n n 
PG O3G ANP sing 15 n n 
PG N3B ANP sing 16 n n 
O2G HOG2 ANP sing 17 n n 
O3G HOG3 ANP sing 18 n n 
PB O1B ANP doub 19 n n 
PB O2B ANP sing 20 n n 
PB N3B ANP sing 21 n n 
PB O3A ANP sing 22 n n 
O2B HOB2 ANP sing 23 n n 
N3B HNB1 ANP sing 24 n n 
PA O1A ANP doub 25 n n 
PA O2A ANP sing 26 n n 
PA O3A ANP sing 27 n n 
PA O5' ANP sing 28 n n 
O2A HOA2 ANP sing 29 n n 
O5' C5' ANP sing 30 n n 
C5' C4' ANP sing 31 n n 
C5' "H5'1" ANP sing 32 n n 
C5' "H5'2" ANP sing 33 n n 
C4' O4' ANP sing 34 n n 
C4' C3' ANP sing 35 n n 
C4' H4' ANP sing 36 n n 
O4' C1' ANP sing 37 n n 
C3' O3' ANP sing 38 n n 
C3' C2' ANP sing 39 n n 
C3' H3' ANP sing 40 n n 
O3' HO3' ANP sing 41 n n 
C2' O2' ANP sing 42 n n 
C2' C1' ANP sing 43 n n 
C2' H2' ANP sing 44 n n 
O2' HO2' ANP sing 45 n n 
C1' N9 ANP sing 46 n n 
C1' H1' ANP sing 47 n n 
N9 C8 ANP sing 48 n y 
N9 C4 ANP sing 49 n y 
C8 N7 ANP doub 50 n y 
C8 H8 ANP sing 51 n n 
N7 C5 ANP sing 52 n y 
C5 C6 ANP sing 53 n y 
C5 C4 ANP doub 54 n y 
C6 N6 ANP sing 55 n n 
C6 N1 ANP doub 56 n y 
N6 HN61 ANP sing 57 n n 
N6 HN62 ANP sing 58 n n 
N1 C2 ANP sing 59 n y 
C2 N3 ANP doub 60 n y 
C2 H2 ANP sing 61 n n 
N3 C4 ANP sing 62 n y 
#
_atom_sites.entry_id                     2XND 
_atom_sites.fract_transf_matrix[1][1]    0.006421 
_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]    0.006365 
_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]    0.004044 
_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
R 7 ANP A 1 600 600 ANP ANP . 
S 8 MG A 1 601 601 MG MG . 
T 7 ANP B 1 600 600 ANP ANP . 
U 8 MG B 1 601 601 MG MG . 
V 9 GOL B 1 701 701 GOL GOL . 
W 7 ANP C 1 600 600 ANP ANP . 
X 8 MG C 1 601 601 MG MG . 
Y 7 ANP D 1 600 600 ANP ANP . 
Z 8 MG D 1 601 601 MG MG . 
AA 10 SO4 E 1 630 630 SO4 SO4 . 
BA 7 ANP F 1 600 600 ANP ANP . 
CA 8 MG F 1 601 601 MG MG . 
#
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 PG ANP . . . W 7 58.184 -1.735 74.603 1 59.96 ? PG ANP 600 C 1 
HETATM 2 O O1G ANP . . . W 7 58.264 -0.182 74.928 1 60.16 ? O1G ANP 600 C 1 
HETATM 3 O O2G ANP . . . W 7 59.633 -2.329 74.322 1 60.06 ? O2G ANP 600 C 1 
HETATM 4 O O3G ANP . . . W 7 57.241 -1.964 73.342 1 59.56 ? O3G ANP 600 C 1 
HETATM 5 P PB ANP . . . W 7 57.369 -4.29 75.848 1 60.81 ? PB ANP 600 C 1 
HETATM 6 O O1B ANP . . . W 7 56.168 -4.565 74.85 1 60.97 ? O1B ANP 600 C 1 
HETATM 7 O O2B ANP . . . W 7 58.731 -4.905 75.295 1 60.69 ? O2B ANP 600 C 1 
HETATM 8 N N3B ANP . . . W 7 57.537 -2.563 75.99 1 60.37 ? N3B ANP 600 C 1 
HETATM 9 P PA ANP . . . W 7 57.879 -4.513 78.57 1 60.92 ? PA ANP 600 C 1 
HETATM 10 O O1A ANP . . . W 7 59.015 -5.6 78.794 1 61.01 ? O1A ANP 600 C 1 
HETATM 11 O O2A ANP . . . W 7 58.514 -3.063 78.403 1 60.79 ? O2A ANP 600 C 1 
HETATM 12 O O3A ANP . . . W 7 57.008 -4.91 77.283 1 60.91 ? O3A ANP 600 C 1 
HETATM 13 O O5' ANP . . . W 7 56.806 -4.538 79.767 1 61.13 ? O5' ANP 600 C 1 
HETATM 14 C C5' ANP . . . W 7 55.916 -3.438 79.938 1 62.14 ? C5' ANP 600 C 1 
HETATM 15 C C4' ANP . . . W 7 55.992 -2.877 81.355 1 62.85 ? C4' ANP 600 C 1 
HETATM 16 O O4' ANP . . . W 7 55.071 -3.579 82.193 1 63.12 ? O4' ANP 600 C 1 
HETATM 17 C C3' ANP . . . W 7 57.381 -3.021 81.961 1 63.32 ? C3' ANP 600 C 1 
HETATM 18 O O3' ANP . . . W 7 57.926 -1.736 82.226 1 63.49 ? O3' ANP 600 C 1 
HETATM 19 C C2' ANP . . . W 7 57.207 -3.865 83.218 1 63.56 ? C2' ANP 600 C 1 
HETATM 20 O O2' ANP . . . W 7 57.62 -3.192 84.401 1 63.92 ? O2' ANP 600 C 1 
HETATM 21 C C1' ANP . . . W 7 55.724 -4.19 83.31 1 63.52 ? C1' ANP 600 C 1 
HETATM 22 N N9 ANP . . . W 7 55.52 -5.663 83.267 1 63.74 ? N9 ANP 600 C 1 
HETATM 23 C C8 ANP . . . W 7 55.848 -6.516 82.264 1 63.85 ? C8 ANP 600 C 1 
HETATM 24 N N7 ANP . . . W 7 55.529 -7.827 82.528 1 63.78 ? N7 ANP 600 C 1 
HETATM 25 C C5 ANP . . . W 7 54.966 -7.829 83.746 1 63.94 ? C5 ANP 600 C 1 
HETATM 26 C C6 ANP . . . W 7 54.37 -8.792 84.708 1 64.18 ? C6 ANP 600 C 1 
HETATM 27 N N6 ANP . . . W 7 54.311 -10.112 84.401 1 64.03 ? N6 ANP 600 C 1 
HETATM 28 N N1 ANP . . . W 7 53.89 -8.33 85.895 1 64.54 ? N1 ANP 600 C 1 
HETATM 29 C C2 ANP . . . W 7 53.923 -7.028 86.261 1 64.41 ? C2 ANP 600 C 1 
HETATM 30 N N3 ANP . . . W 7 54.433 -6.063 85.475 1 64.17 ? N3 ANP 600 C 1 
HETATM 31 C C4 ANP . . . W 7 54.971 -6.442 84.19 1 63.94 ? C4 ANP 600 C 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    61 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#