data_4NH1
#
_model_server_result.job_id            0Ia9PdQqHod2CVpY9u4JFQ 
_model_server_result.datetime_utc      '2024-11-22 17:14:31' 
_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          4nh1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":403}' 
#
_entry.id    4NH1 
#
_exptl.entry_id    4NH1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_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          118.54 
_cell.angle_gamma         90 
_cell.entry_id            4NH1 
_cell.length_a            210.537 
_cell.length_b            57.441 
_cell.length_c            139.394 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NH1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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
? 4 G N N 
? 4 K 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 OD1 ASN 161 A ASN 161 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc2 A OD2 ASP 175 A ASP 175 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? 
metalc ? metalc3 A OD1 ASP 175 A ASP 175 1_555 F MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? 
metalc ? metalc4 A OD2 ASP 175 A ASP 175 1_555 F MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc5 E MG MG . A MG 401 1_555 G O3G ACP . A ACP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc6 E MG MG . A MG 401 1_555 G O2A ACP . A ACP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc7 E MG MG . A MG 401 1_555 N O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc8 F MG MG . A MG 402 1_555 G O1B ACP . A ACP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? 
metalc ? metalc9 F MG MG . A MG 402 1_555 G O2G ACP . A ACP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc10 B OD1 ASN 161 B ASN 161 1_555 I MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc11 B OD1 ASP 175 B ASP 175 1_555 H MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? 
metalc ? metalc12 B OD2 ASP 175 B ASP 175 1_555 H MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc13 B OD2 ASP 175 B ASP 175 1_555 I MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc14 H MG MG . B MG 401 1_555 K O1B ACP . B ACP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? 
metalc ? metalc15 H MG MG . B MG 401 1_555 K O2G ACP . B ACP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
metalc ? metalc16 H MG MG . B MG 401 1_555 O O HOH . B HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
metalc ? metalc17 I MG MG . B MG 402 1_555 K O3G ACP . B ACP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc18 I MG MG . B MG 402 1_555 K O2A ACP . B ACP 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc19 I MG MG . B MG 402 1_555 O O HOH . B HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc20 C SG CYS 109 C CYS 109 1_555 L ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? 
metalc ? metalc21 C SG CYS 114 C CYS 114 1_555 L ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc22 C SG CYS 137 C CYS 137 1_555 L ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? 
metalc ? metalc23 C SG CYS 140 C CYS 140 1_555 L ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? 
metalc ? metalc24 D SG CYS 109 D CYS 109 1_555 M ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc25 D SG CYS 114 D CYS 114 1_555 M ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc26 D SG CYS 137 D CYS 137 1_555 M ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? 
metalc ? metalc27 D SG CYS 140 D CYS 140 1_555 M ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? 
#
_chem_comp.formula           'C11 H18 N5 O12 P3' 
_chem_comp.formula_weight    505.208 
_chem_comp.id                ACP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" 
#
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 ACP doub 1 n n 
PG O2G ACP sing 2 n n 
PG O3G ACP sing 3 n n 
PG C3B ACP sing 4 n n 
O2G HOG2 ACP sing 5 n n 
O3G HOG3 ACP sing 6 n n 
PB O1B ACP doub 7 n n 
PB O2B ACP sing 8 n n 
PB C3B ACP sing 9 n n 
PB O3A ACP sing 10 n n 
O2B HOB2 ACP sing 11 n n 
C3B H3B1 ACP sing 12 n n 
C3B H3B2 ACP sing 13 n n 
PA O1A ACP doub 14 n n 
PA O2A ACP sing 15 n n 
PA O3A ACP sing 16 n n 
PA O5' ACP sing 17 n n 
O2A HOA2 ACP sing 18 n n 
O5' C5' ACP sing 19 n n 
C5' C4' ACP sing 20 n n 
C5' "H5'1" ACP sing 21 n n 
C5' "H5'2" ACP sing 22 n n 
C4' O4' ACP sing 23 n n 
C4' C3' ACP sing 24 n n 
C4' H4' ACP sing 25 n n 
O4' C1' ACP sing 26 n n 
C3' O3' ACP sing 27 n n 
C3' C2' ACP sing 28 n n 
C3' H3' ACP sing 29 n n 
O3' HO3' ACP sing 30 n n 
C2' O2' ACP sing 31 n n 
C2' C1' ACP sing 32 n n 
C2' H2' ACP sing 33 n n 
O2' HO2' ACP sing 34 n n 
C1' N9 ACP sing 35 n n 
C1' H1' ACP sing 36 n n 
N9 C8 ACP sing 37 n y 
N9 C4 ACP sing 38 n y 
C8 N7 ACP doub 39 n y 
C8 H8 ACP sing 40 n n 
N7 C5 ACP sing 41 n y 
C5 C6 ACP sing 42 n y 
C5 C4 ACP doub 43 n y 
C6 N6 ACP sing 44 n n 
C6 N1 ACP doub 45 n y 
N6 HN61 ACP sing 46 n n 
N6 HN62 ACP sing 47 n n 
N1 C2 ACP sing 48 n y 
C2 N3 ACP doub 49 n y 
C2 H2 ACP sing 50 n n 
N3 C4 ACP sing 51 n y 
#
_atom_sites.entry_id                     4NH1 
_atom_sites.fract_transf_matrix[1][1]    0.00475 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002583 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017409 
_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]    0.008166 
_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 3 MG A 1 401 4 MG MG . 
F 3 MG A 1 402 5 MG MG . 
G 4 ACP A 1 403 9 ACP ACP . 
H 3 MG B 1 401 3 MG MG . 
I 3 MG B 1 402 6 MG MG . 
J 5 GOL B 1 403 7 GOL GOL . 
K 4 ACP B 1 404 8 ACP ACP . 
L 6 ZN C 1 301 1 ZN ZN . 
M 6 ZN D 1 301 2 ZN ZN . 
N 7 HOH A 1 501 1 HOH HOH . 
N 7 HOH A 2 502 9 HOH HOH . 
N 7 HOH A 3 503 15 HOH HOH . 
O 7 HOH B 1 501 2 HOH HOH . 
O 7 HOH B 2 502 8 HOH HOH . 
O 7 HOH B 3 503 11 HOH HOH . 
O 7 HOH B 4 504 16 HOH HOH . 
O 7 HOH B 5 505 17 HOH HOH . 
O 7 HOH B 6 506 18 HOH HOH . 
O 7 HOH B 7 507 19 HOH HOH . 
O 7 HOH B 8 508 20 HOH HOH . 
O 7 HOH B 9 509 21 HOH HOH . 
P 7 HOH C 1 401 10 HOH HOH . 
P 7 HOH C 2 402 12 HOH HOH . 
P 7 HOH C 3 403 13 HOH HOH . 
Q 7 HOH D 1 401 3 HOH HOH . 
Q 7 HOH D 2 402 4 HOH HOH . 
Q 7 HOH D 3 403 5 HOH HOH . 
Q 7 HOH D 4 404 6 HOH HOH . 
Q 7 HOH D 5 405 14 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 PG ACP . . . G 4 36.931 -9.39 76.326 0.92 245.63 ? PG ACP 403 A 1 
HETATM 2 O O1G ACP . . . G 4 35.718 -10.144 75.926 0.92 245.99 ? O1G ACP 403 A 1 
HETATM 3 O O2G ACP . . . G 4 36.578 -8.17 77.323 0.92 141.35 ? O2G ACP 403 A 1 
HETATM 4 O O3G ACP . . . G 4 37.955 -10.331 77.157 0.92 112.54 ? O3G ACP 403 A 1 
HETATM 5 P PB ACP . . . G 4 39 -7.356 75.386 0.92 191.05 ? PB ACP 403 A 1 
HETATM 6 O O1B ACP . . . G 4 39.067 -7.1 76.843 0.92 172.49 ? O1B ACP 403 A 1 
HETATM 7 O O2B ACP . . . G 4 38.443 -6.055 74.595 0.92 104.1 ? O2B ACP 403 A 1 
HETATM 8 C C3B ACP . . . G 4 37.847 -8.713 74.9 0.92 223.11 ? C3B ACP 403 A 1 
HETATM 9 P PA ACP . . . G 4 41.749 -7.929 75.592 0.92 129.42 ? PA ACP 403 A 1 
HETATM 10 O O1A ACP . . . G 4 42.306 -6.637 76.069 0.92 97.23 ? O1A ACP 403 A 1 
HETATM 11 O O2A ACP . . . G 4 41.345 -8.903 76.829 0.92 185.6 ? O2A ACP 403 A 1 
HETATM 12 O O3A ACP . . . G 4 40.405 -7.726 74.706 0.92 78 ? O3A ACP 403 A 1 
HETATM 13 O O5' ACP . . . G 4 42.737 -8.739 74.618 0.92 104.1 ? O5' ACP 403 A 1 
HETATM 14 C C5' ACP . . . G 4 43.245 -10.025 74.972 0.92 106.45 ? C5' ACP 403 A 1 
HETATM 15 C C4' ACP . . . G 4 44.443 -10.32 74.076 0.92 113.55 ? C4' ACP 403 A 1 
HETATM 16 O O4' ACP . . . G 4 45.406 -9.322 74.401 0.92 116.94 ? O4' ACP 403 A 1 
HETATM 17 C C3' ACP . . . G 4 45.104 -11.616 74.486 0.92 124.51 ? C3' ACP 403 A 1 
HETATM 18 O O3' ACP . . . G 4 44.686 -12.665 73.599 0.92 129.99 ? O3' ACP 403 A 1 
HETATM 19 C C2' ACP . . . G 4 46.584 -11.337 74.278 0.92 124.45 ? C2' ACP 403 A 1 
HETATM 20 O O2' ACP . . . G 4 47.06 -12.093 73.153 0.92 111.78 ? O2' ACP 403 A 1 
HETATM 21 C C1' ACP . . . G 4 46.654 -9.85 73.956 0.92 123.46 ? C1' ACP 403 A 1 
HETATM 22 N N9 ACP . . . G 4 47.66 -9.158 74.786 0.92 120.47 ? N9 ACP 403 A 1 
HETATM 23 C C8 ACP . . . G 4 47.361 -8.164 75.616 0.92 107.96 ? C8 ACP 403 A 1 
HETATM 24 N N7 ACP . . . G 4 48.485 -7.77 76.205 0.92 107.93 ? N7 ACP 403 A 1 
HETATM 25 C C5 ACP . . . G 4 49.48 -8.52 75.741 0.92 115.3 ? C5 ACP 403 A 1 
HETATM 26 C C6 ACP . . . G 4 50.782 -8.518 76.016 0.92 119.01 ? C6 ACP 403 A 1 
HETATM 27 N N6 ACP . . . G 4 51.191 -7.619 76.908 0.92 106.48 ? N6 ACP 403 A 1 
HETATM 28 N N1 ACP . . . G 4 51.632 -9.37 75.43 0.92 140.44 ? N1 ACP 403 A 1 
HETATM 29 C C2 ACP . . . G 4 51.131 -10.286 74.504 0.92 147.15 ? C2 ACP 403 A 1 
HETATM 30 N N3 ACP . . . G 4 49.76 -10.267 74.233 0.92 143.23 ? N3 ACP 403 A 1 
HETATM 31 C C4 ACP . . . G 4 48.97 -9.383 74.859 0.92 128.97 ? C4 ACP 403 A 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           31 
#