data_6B4J
#
_model_server_result.job_id            r1JY5-61jxdtkUb0814iRA 
_model_server_result.datetime_utc      '2024-11-22 04:10:51' 
_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          6b4j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":504}' 
#
_entry.id    6B4J 
#
_exptl.entry_id    6B4J 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              506.196 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC 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          95.07 
_cell.angle_gamma         90 
_cell.entry_id            6B4J 
_cell.length_a            87.94 
_cell.length_b            73.56 
_cell.length_c            145.86 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6B4J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? trimeric 3 author_defined_assembly 1 
? trimeric 3 author_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,F,G,H,M,N,O,P 1 1 
C,D,E,I,J,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
? 6 L N N 
? 6 P 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 E OG1 THR 96 E THR 145 1_555 K MG MG . E MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.756 ? 
metalc ? metalc2 K MG MG . E MG 503 1_555 L O2G ANP . E ANP 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? 
metalc ? metalc3 F OG1 THR 96 F THR 145 1_555 O MG MG . F MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? 
metalc ? metalc4 F OD1 ASP 193 F ASP 242 1_555 O MG MG . F MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.895 ? 
metalc ? metalc5 O MG MG . F MG 503 1_555 P O2G ANP . F ANP 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
#
_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                     6B4J 
_atom_sites.fract_transf_matrix[1][1]    0.011371 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001009 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013594 
_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]    0.006883 
_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
G 4 PO4 B 1 701 1 PO4 PO4 . 
H 4 PO4 B 1 702 2 PO4 PO4 . 
I 4 PO4 E 1 501 4 PO4 PO4 . 
J 4 PO4 E 1 502 6 PO4 PO4 . 
K 5 MG E 1 503 1 MG MG . 
L 6 ANP E 1 504 3 ANP ANP . 
M 4 PO4 F 1 501 3 PO4 PO4 . 
N 4 PO4 F 1 502 5 PO4 PO4 . 
O 5 MG F 1 503 2 MG MG . 
P 6 ANP F 1 504 2 ANP ANP . 
#
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 . . . L 6 47.965 -13.59 20.175 1 112.46 ? PG ANP 504 E 1 
HETATM 2 O O1G ANP . . . L 6 48.13 -12.253 19.626 1 95.97 ? O1G ANP 504 E 1 
HETATM 3 O O2G ANP . . . L 6 49.12 -14.565 19.716 1 106.8 ? O2G ANP 504 E 1 
HETATM 4 O O3G ANP . . . L 6 46.588 -14.228 19.732 1 103.95 ? O3G ANP 504 E 1 
HETATM 5 P PB ANP . . . L 6 47.303 -14.564 22.916 1 87.57 ? PB ANP 504 E 1 
HETATM 6 O O1B ANP . . . L 6 48.246 -15.66 23.075 1 86.14 ? O1B ANP 504 E 1 
HETATM 7 O O2B ANP . . . L 6 46.501 -15.748 22.267 1 95.35 ? O2B ANP 504 E 1 
HETATM 8 N N3B ANP . . . L 6 48.003 -13.558 21.809 1 98.85 ? N3B ANP 504 E 1 
HETATM 9 P PA ANP . . . L 6 49.417 -15.001 25.016 1 84.55 ? PA ANP 504 E 1 
HETATM 10 O O1A ANP . . . L 6 49.669 -16.457 25 1 92.85 ? O1A ANP 504 E 1 
HETATM 11 O O2A ANP . . . L 6 50.459 -14.153 24.286 1 84.19 ? O2A ANP 504 E 1 
HETATM 12 O O3A ANP . . . L 6 47.995 -14.646 24.391 1 91.47 ? O3A ANP 504 E 1 
HETATM 13 O O5' ANP . . . L 6 49.317 -14.446 26.528 1 71.78 ? O5' ANP 504 E 1 
HETATM 14 C C5' ANP . . . L 6 48.432 -13.356 26.858 1 71.75 ? C5' ANP 504 E 1 
HETATM 15 C C4' ANP . . . L 6 48.728 -12.871 28.255 1 72.77 ? C4' ANP 504 E 1 
HETATM 16 O O4' ANP . . . L 6 48.053 -13.714 29.216 1 75.93 ? O4' ANP 504 E 1 
HETATM 17 C C3' ANP . . . L 6 50.204 -12.876 28.651 1 82.37 ? C3' ANP 504 E 1 
HETATM 18 O O3' ANP . . . L 6 50.511 -11.754 29.471 1 83.72 ? O3' ANP 504 E 1 
HETATM 19 C C2' ANP . . . L 6 50.35 -14.196 29.414 1 86.2 ? C2' ANP 504 E 1 
HETATM 20 O O2' ANP . . . L 6 51.387 -14.129 30.386 1 93.13 ? O2' ANP 504 E 1 
HETATM 21 C C1' ANP . . . L 6 48.99 -14.296 30.102 1 85.53 ? C1' ANP 504 E 1 
HETATM 22 N N9 ANP . . . L 6 48.557 -15.659 30.386 1 87.26 ? N9 ANP 504 E 1 
HETATM 23 C C8 ANP . . . L 6 48.333 -16.658 29.472 1 88.23 ? C8 ANP 504 E 1 
HETATM 24 N N7 ANP . . . L 6 47.897 -17.775 29.997 1 91.26 ? N7 ANP 504 E 1 
HETATM 25 C C5 ANP . . . L 6 47.829 -17.498 31.359 1 89.28 ? C5 ANP 504 E 1 
HETATM 26 C C6 ANP . . . L 6 47.427 -18.267 32.462 1 95.67 ? C6 ANP 504 E 1 
HETATM 27 N N6 ANP . . . L 6 46.982 -19.523 32.372 1 104.03 ? N6 ANP 504 E 1 
HETATM 28 N N1 ANP . . . L 6 47.481 -17.687 33.682 1 99.1 ? N1 ANP 504 E 1 
HETATM 29 C C2 ANP . . . L 6 47.907 -16.424 33.776 1 92.09 ? C2 ANP 504 E 1 
HETATM 30 N N3 ANP . . . L 6 48.306 -15.6 32.804 1 79.38 ? N3 ANP 504 E 1 
HETATM 31 C C4 ANP . . . L 6 48.241 -16.199 31.605 1 85.2 ? C4 ANP 504 E 1 
HETATM 32 H HOG2 ANP . . . L 6 49.138 -14.875 18.773 1 128.16 ? HOG2 ANP 504 E 1 
HETATM 33 H HOG3 ANP . . . L 6 46.3 -14.338 18.788 1 124.74 ? HOG3 ANP 504 E 1 
HETATM 34 H HOB2 ANP . . . L 6 45.623 -16.077 22.594 1 114.42 ? HOB2 ANP 504 E 1 
HETATM 35 H HNB1 ANP . . . L 6 48.546 -12.796 22.202 1 118.62 ? HNB1 ANP 504 E 1 
HETATM 36 H HOA2 ANP . . . L 6 51.419 -14.33 24.104 1 101.02 ? HOA2 ANP 504 E 1 
HETATM 37 H "H5'1" ANP . . . L 6 47.433 -13.776 26.752 1 86.1 ? "H5'1" ANP 504 E 1 
HETATM 38 H "H5'2" ANP . . . L 6 48.524 -12.54 26.144 1 86.1 ? "H5'2" ANP 504 E 1 
HETATM 39 H H4' ANP . . . L 6 48.281 -11.892 28.421 1 87.33 ? H4' ANP 504 E 1 
HETATM 40 H H3' ANP . . . L 6 50.84 -12.83 27.769 1 98.85 ? H3' ANP 504 E 1 
HETATM 41 H HO3' ANP . . . L 6 51.286 -11.274 29.077 1 100.47 ? HO3' ANP 504 E 1 
HETATM 42 H H2' ANP . . . L 6 50.508 -15.016 28.715 1 103.44 ? H2' ANP 504 E 1 
HETATM 43 H HO2' ANP . . . L 6 52.104 -14.735 30.063 1 111.76 ? HO2' ANP 504 E 1 
HETATM 44 H H1' ANP . . . L 6 48.967 -13.726 31.03 1 102.64 ? H1' ANP 504 E 1 
HETATM 45 H H8 ANP . . . L 6 48.511 -16.51 28.408 1 105.88 ? H8 ANP 504 E 1 
HETATM 46 H HN61 ANP . . . L 6 46.92 -19.971 31.464 1 124.83 ? HN61 ANP 504 E 1 
HETATM 47 H HN62 ANP . . . L 6 46.696 -20.059 33.185 1 124.83 ? HN62 ANP 504 E 1 
HETATM 48 H H2 ANP . . . L 6 47.928 -16.024 34.789 1 110.51 ? H2 ANP 504 E 1 
#
_model_server_stats.io_time_ms              72 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          19 
_model_server_stats.element_count           48 
#