data_4ITL
#
_model_server_result.job_id            pWCRVzObduG5aLQtiUBvDA 
_model_server_result.datetime_utc      '2025-07-07 16:51:11' 
_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          4itl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    4ITL 
#
_exptl.entry_id    4ITL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    1 
_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            4ITL 
_cell.length_a            66.086 
_cell.length_b            75.372 
_cell.length_c            104.56 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4ITL 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_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                     4ITL 
_atom_sites.fract_transf_matrix[1][1]    0.015132 
_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]    0.013268 
_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]    0.009564 
_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
B 2 ACP A 1 401 1 ACP ACP . 
C 3 GOL A 1 402 401 GOL GOL . 
D 3 GOL A 1 403 402 GOL GOL . 
E 3 GOL A 1 404 403 GOL GOL . 
F 4 HOH A 1 501 1 HOH HOH . 
F 4 HOH A 2 502 2 HOH HOH . 
F 4 HOH A 3 503 3 HOH HOH . 
F 4 HOH A 4 504 4 HOH HOH . 
F 4 HOH A 5 505 5 HOH HOH . 
F 4 HOH A 6 506 6 HOH HOH . 
F 4 HOH A 7 507 7 HOH HOH . 
F 4 HOH A 8 508 8 HOH HOH . 
F 4 HOH A 9 509 9 HOH HOH . 
F 4 HOH A 10 510 10 HOH HOH . 
F 4 HOH A 11 511 11 HOH HOH . 
F 4 HOH A 12 512 12 HOH HOH . 
F 4 HOH A 13 513 13 HOH HOH . 
F 4 HOH A 14 514 14 HOH HOH . 
F 4 HOH A 15 515 15 HOH HOH . 
F 4 HOH A 16 516 16 HOH HOH . 
F 4 HOH A 17 517 17 HOH HOH . 
F 4 HOH A 18 518 18 HOH HOH . 
F 4 HOH A 19 519 19 HOH HOH . 
F 4 HOH A 20 520 20 HOH HOH . 
F 4 HOH A 21 521 21 HOH HOH . 
F 4 HOH A 22 522 22 HOH HOH . 
F 4 HOH A 23 523 23 HOH HOH . 
F 4 HOH A 24 524 24 HOH HOH . 
F 4 HOH A 25 525 25 HOH HOH . 
F 4 HOH A 26 526 26 HOH HOH . 
F 4 HOH A 27 527 27 HOH HOH . 
F 4 HOH A 28 528 28 HOH HOH . 
F 4 HOH A 29 529 29 HOH HOH . 
F 4 HOH A 30 530 30 HOH HOH . 
F 4 HOH A 31 531 31 HOH HOH . 
F 4 HOH A 32 532 32 HOH HOH . 
F 4 HOH A 33 533 33 HOH HOH . 
F 4 HOH A 34 534 34 HOH HOH . 
F 4 HOH A 35 535 35 HOH HOH . 
F 4 HOH A 36 536 36 HOH HOH . 
F 4 HOH A 37 537 37 HOH HOH . 
F 4 HOH A 38 538 38 HOH HOH . 
F 4 HOH A 39 539 39 HOH HOH . 
F 4 HOH A 40 540 40 HOH HOH . 
F 4 HOH A 41 541 41 HOH HOH . 
F 4 HOH A 42 542 42 HOH HOH . 
F 4 HOH A 43 543 43 HOH HOH . 
F 4 HOH A 44 544 44 HOH HOH . 
F 4 HOH A 45 545 45 HOH HOH . 
F 4 HOH A 46 546 46 HOH HOH . 
F 4 HOH A 47 547 47 HOH HOH . 
F 4 HOH A 48 548 48 HOH HOH . 
F 4 HOH A 49 549 49 HOH HOH . 
F 4 HOH A 50 550 50 HOH HOH . 
F 4 HOH A 51 551 51 HOH HOH . 
F 4 HOH A 52 552 52 HOH HOH . 
F 4 HOH A 53 553 53 HOH HOH . 
F 4 HOH A 54 554 54 HOH HOH . 
F 4 HOH A 55 555 55 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 . . . B 2 8.089 -2.124 -5.56 1 46.13 ? PG ACP 401 A 1 
HETATM 2 O O1G ACP . . . B 2 9.536 -1.909 -5.957 1 47.3 ? O1G ACP 401 A 1 
HETATM 3 O O2G ACP . . . B 2 7.082 -1.63 -6.62 1 41.07 ? O2G ACP 401 A 1 
HETATM 4 O O3G ACP . . . B 2 7.838 -1.315 -4.248 1 50.4 ? O3G ACP 401 A 1 
HETATM 5 P PB ACP . . . B 2 6.453 -4.355 -4.325 1 31.33 ? PB ACP 401 A 1 
HETATM 6 O O1B ACP . . . B 2 6.485 -5.868 -4.252 1 22.58 ? O1B ACP 401 A 1 
HETATM 7 O O2B ACP . . . B 2 5.231 -3.998 -5.172 1 32.79 ? O2B ACP 401 A 1 
HETATM 8 C C3B ACP . . . B 2 7.955 -3.939 -5.269 1 41.65 ? C3B ACP 401 A 1 
HETATM 9 P PA ACP . . . B 2 5.694 -4.108 -1.633 1 36.86 ? PA ACP 401 A 1 
HETATM 10 O O1A ACP . . . B 2 4.23 -4.491 -1.575 1 31.24 ? O1A ACP 401 A 1 
HETATM 11 O O2A ACP . . . B 2 6.063 -2.965 -0.757 1 20.45 ? O2A ACP 401 A 1 
HETATM 12 O O3A ACP . . . B 2 6.186 -3.492 -3.041 1 34.81 ? O3A ACP 401 A 1 
HETATM 13 O O5' ACP . . . B 2 6.544 -5.396 -1.224 1 40.17 ? O5' ACP 401 A 1 
HETATM 14 C C5' ACP . . . B 2 7.935 -5.239 -1 1 25.99 ? C5' ACP 401 A 1 
HETATM 15 C C4' ACP . . . B 2 8.422 -6.178 0.098 1 25.26 ? C4' ACP 401 A 1 
HETATM 16 O O4' ACP . . . B 2 8.339 -5.41 1.3 1 24.12 ? O4' ACP 401 A 1 
HETATM 17 C C3' ACP . . . B 2 7.619 -7.407 0.358 1 24.48 ? C3' ACP 401 A 1 
HETATM 18 O O3' ACP . . . B 2 7.979 -8.49 -0.383 1 20.98 ? O3' ACP 401 A 1 
HETATM 19 C C2' ACP . . . B 2 7.871 -7.632 1.813 1 28.52 ? C2' ACP 401 A 1 
HETATM 20 O O2' ACP . . . B 2 9.087 -8.231 2.138 1 29.85 ? O2' ACP 401 A 1 
HETATM 21 C C1' ACP . . . B 2 7.865 -6.24 2.313 1 25.34 ? C1' ACP 401 A 1 
HETATM 22 N N9 ACP . . . B 2 6.566 -5.768 2.786 1 31.39 ? N9 ACP 401 A 1 
HETATM 23 C C8 ACP . . . B 2 5.782 -4.803 2.246 1 34.87 ? C8 ACP 401 A 1 
HETATM 24 N N7 ACP . . . B 2 4.675 -4.66 3.008 1 22.21 ? N7 ACP 401 A 1 
HETATM 25 C C5 ACP . . . B 2 4.759 -5.5 4.049 1 32.06 ? C5 ACP 401 A 1 
HETATM 26 C C6 ACP . . . B 2 3.941 -5.793 5.14 1 34.92 ? C6 ACP 401 A 1 
HETATM 27 N N6 ACP . . . B 2 2.686 -5.103 5.313 1 32.84 ? N6 ACP 401 A 1 
HETATM 28 N N1 ACP . . . B 2 4.313 -6.736 6.014 1 28.98 ? N1 ACP 401 A 1 
HETATM 29 C C2 ACP . . . B 2 5.471 -7.426 5.868 1 38.64 ? C2 ACP 401 A 1 
HETATM 30 N N3 ACP . . . B 2 6.303 -7.178 4.833 1 26.38 ? N3 ACP 401 A 1 
HETATM 31 C C4 ACP . . . B 2 5.96 -6.233 3.918 1 30.55 ? C4 ACP 401 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#