data_5FOM
#
_model_server_result.job_id            iw-Lci_MAJ-tVVjUByUmfg 
_model_server_result.datetime_utc      '2024-12-13 09:49:19' 
_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          5fom 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":1542}' 
#
_entry.id    5FOM 
#
_exptl.entry_id    5FOM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              567.661 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '4-Chloro-3-aminomethyl-7-[ethoxy]-3H-benzo[C][1,2]oxaborol-1-ol modified adenosine' 
_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            5FOM 
_cell.length_a            65.065 
_cell.length_b            65.065 
_cell.length_c            167.301 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5FOM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 8_554 -y,-x,-z-1/2 0 -1 0 -1 0 0 0 0 -1 0 0 -83.6505 
#
_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           'C20 H22 B Cl N6 O9 P -3' 
_chem_comp.formula_weight    567.661 
_chem_comp.id                A2H 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '4-Chloro-3-aminomethyl-7-[ethoxy]-3H-benzo[C][1,2]oxaborol-1-ol modified adenosine' 
_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
B O1 A2H sing 1 n n 
B C12 A2H sing 2 n n 
B O2' A2H sing 3 n n 
B O3' A2H sing 4 n n 
P O1P A2H doub 5 n n 
P O2P A2H sing 6 n n 
P O3P A2H sing 7 n n 
P O5' A2H sing 8 n n 
CL C13 A2H sing 9 n n 
N1 C2 A2H doub 10 n y 
N1 C6 A2H sing 11 n y 
O1 C10 A2H sing 12 n n 
C2 N3 A2H sing 13 n y 
N3 C4 A2H doub 14 n y 
C4 C5 A2H sing 15 n y 
C4 N9 A2H sing 16 n y 
C5 C6 A2H doub 17 n y 
C5 N7 A2H sing 18 n y 
C6 N6 A2H sing 19 n n 
N7 C8 A2H doub 20 n y 
C8 N9 A2H sing 21 n y 
N9 C1' A2H sing 22 n n 
C1' C2' A2H sing 23 n n 
C1' O4' A2H sing 24 n n 
C10 C11 A2H sing 25 n n 
C10 C17 A2H sing 26 n n 
C11 C12 A2H doub 27 n y 
C11 C13 A2H sing 28 n y 
C12 C16 A2H sing 29 n y 
C13 C14 A2H doub 30 n y 
C14 C15 A2H sing 31 n y 
C15 C16 A2H doub 32 n y 
C16 O19 A2H sing 33 n n 
C17 N18 A2H sing 34 n n 
O19 C20 A2H sing 35 n n 
C2' O2' A2H sing 36 n n 
C2' C3' A2H sing 37 n n 
C20 C21 A2H sing 38 n n 
C3' O3' A2H sing 39 n n 
C3' C4' A2H sing 40 n n 
C4' O4' A2H sing 41 n n 
C4' C5' A2H sing 42 n n 
C5' O5' A2H sing 43 n n 
C2 H2 A2H sing 44 n n 
N6 HN6 A2H sing 45 n n 
N6 HN6A A2H sing 46 n n 
C8 H8 A2H sing 47 n n 
C1' H1' A2H sing 48 n n 
C10 H10 A2H sing 49 n n 
C14 H14 A2H sing 50 n n 
C15 H15 A2H sing 51 n n 
C17 H17 A2H sing 52 n n 
C17 H17A A2H sing 53 n n 
N18 HN18 A2H sing 54 n n 
N18 HN1A A2H sing 55 n n 
C2' H2' A2H sing 56 n n 
C20 H20 A2H sing 57 n n 
C20 H20A A2H sing 58 n n 
C21 H21 A2H sing 59 n n 
C21 H21A A2H sing 60 n n 
C21 H21B A2H sing 61 n n 
C3' H3' A2H sing 62 n n 
C4' H4' A2H sing 63 n n 
C5' H5' A2H sing 64 n n 
C5' "H5'A" A2H sing 65 n n 
#
_atom_sites.entry_id                     5FOM 
_atom_sites.fract_transf_matrix[1][1]    0.015369 
_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]    0.015369 
_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]    0.005977 
_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 A2H A 1 1542 1542 A2H A2H . 
C 3 PO4 A 1 1543 1543 PO4 PO4 . 
D 4 HOH A 1 2001 2001 HOH HOH . 
D 4 HOH A 2 2002 2002 HOH HOH . 
D 4 HOH A 3 2003 2003 HOH HOH . 
D 4 HOH A 4 2004 2004 HOH HOH . 
D 4 HOH A 5 2005 2005 HOH HOH . 
D 4 HOH A 6 2006 2006 HOH HOH . 
D 4 HOH A 7 2007 2007 HOH HOH . 
D 4 HOH A 8 2008 2008 HOH HOH . 
D 4 HOH A 9 2009 2009 HOH HOH . 
D 4 HOH A 10 2010 2010 HOH HOH . 
D 4 HOH A 11 2011 2011 HOH HOH . 
D 4 HOH A 12 2012 2012 HOH HOH . 
D 4 HOH A 13 2013 2013 HOH HOH . 
D 4 HOH A 14 2014 2014 HOH HOH . 
D 4 HOH A 15 2015 2015 HOH HOH . 
D 4 HOH A 16 2016 2016 HOH HOH . 
D 4 HOH A 17 2017 2017 HOH HOH . 
D 4 HOH A 18 2018 2018 HOH HOH . 
D 4 HOH A 19 2019 2019 HOH HOH . 
D 4 HOH A 20 2020 2020 HOH HOH . 
D 4 HOH A 21 2021 2021 HOH HOH . 
D 4 HOH A 22 2022 2022 HOH HOH . 
D 4 HOH A 23 2023 2023 HOH HOH . 
D 4 HOH A 24 2024 2024 HOH HOH . 
D 4 HOH A 25 2025 2025 HOH HOH . 
D 4 HOH A 26 2026 2026 HOH HOH . 
D 4 HOH A 27 2027 2027 HOH HOH . 
D 4 HOH A 28 2028 2028 HOH HOH . 
D 4 HOH A 29 2029 2029 HOH HOH . 
D 4 HOH A 30 2030 2030 HOH HOH . 
D 4 HOH A 31 2031 2031 HOH HOH . 
D 4 HOH A 32 2032 2032 HOH HOH . 
D 4 HOH A 33 2033 2033 HOH HOH . 
D 4 HOH A 34 2034 2034 HOH HOH . 
D 4 HOH A 35 2035 2035 HOH HOH . 
D 4 HOH A 36 2036 2036 HOH HOH . 
D 4 HOH A 37 2037 2037 HOH HOH . 
D 4 HOH A 38 2038 2038 HOH HOH . 
D 4 HOH A 39 2039 2039 HOH HOH . 
D 4 HOH A 40 2040 2040 HOH HOH . 
D 4 HOH A 41 2041 2041 HOH HOH . 
D 4 HOH A 42 2042 2042 HOH HOH . 
D 4 HOH A 43 2043 2043 HOH HOH . 
D 4 HOH A 44 2044 2044 HOH HOH . 
D 4 HOH A 45 2045 2045 HOH HOH . 
D 4 HOH A 46 2046 2046 HOH HOH . 
D 4 HOH A 47 2047 2047 HOH HOH . 
D 4 HOH A 48 2048 2048 HOH HOH . 
D 4 HOH A 49 2049 2049 HOH HOH . 
D 4 HOH A 50 2050 2050 HOH HOH . 
D 4 HOH A 51 2051 2051 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 B B A2H . . . B 2 4.369 -15.969 -21.879 1 47.55 ? B A2H 1542 A 1 
HETATM 2 P P A2H . . . B 2 4.352 -10.123 -25.864 1 58.77 ? P A2H 1542 A 1 
HETATM 3 CL CL A2H . . . B 2 4.745 -17.952 -17.136 1 53.94 ? CL A2H 1542 A 1 
HETATM 4 N N1 A2H . . . B 2 -1.818 -13.596 -27.445 1 52.12 ? N1 A2H 1542 A 1 
HETATM 5 O O1 A2H . . . B 2 4.747 -17.388 -21.729 1 46.39 ? O1 A2H 1542 A 1 
HETATM 6 C C2 A2H . . . B 2 -1.762 -13.362 -26.117 1 51.53 ? C2 A2H 1542 A 1 
HETATM 7 N N3 A2H . . . B 2 -0.653 -13.673 -25.409 1 50.05 ? N3 A2H 1542 A 1 
HETATM 8 C C4 A2H . . . B 2 0.424 -14.25 -26.025 1 52.38 ? C4 A2H 1542 A 1 
HETATM 9 C C5 A2H . . . B 2 0.383 -14.512 -27.393 1 54.81 ? C5 A2H 1542 A 1 
HETATM 10 C C6 A2H . . . B 2 -0.763 -14.166 -28.098 1 53.32 ? C6 A2H 1542 A 1 
HETATM 11 N N6 A2H . . . B 2 -0.787 -14.417 -29.424 1 54.27 ? N6 A2H 1542 A 1 
HETATM 12 N N7 A2H . . . B 2 1.557 -15.073 -27.76 1 48.56 ? N7 A2H 1542 A 1 
HETATM 13 C C8 A2H . . . B 2 2.307 -15.164 -26.644 1 46.6 ? C8 A2H 1542 A 1 
HETATM 14 N N9 A2H . . . B 2 1.615 -14.671 -25.593 1 48.15 ? N9 A2H 1542 A 1 
HETATM 15 C C1' A2H . . . B 2 2.034 -14.585 -24.18 1 45.96 ? C1' A2H 1542 A 1 
HETATM 16 C C10 A2H . . . B 2 4.646 -17.874 -20.387 1 47.43 ? C10 A2H 1542 A 1 
HETATM 17 C C11 A2H . . . B 2 4.527 -16.613 -19.609 1 49.23 ? C11 A2H 1542 A 1 
HETATM 18 C C12 A2H . . . B 2 4.421 -15.499 -20.439 1 50.54 ? C12 A2H 1542 A 1 
HETATM 19 C C13 A2H . . . B 2 4.575 -16.508 -18.22 1 52.27 ? C13 A2H 1542 A 1 
HETATM 20 C C14 A2H . . . B 2 4.476 -15.236 -17.651 1 52.26 ? C14 A2H 1542 A 1 
HETATM 21 C C15 A2H . . . B 2 4.35 -14.1 -18.444 1 53.14 ? C15 A2H 1542 A 1 
HETATM 22 C C16 A2H . . . B 2 4.317 -14.209 -19.854 1 54.87 ? C16 A2H 1542 A 1 
HETATM 23 C C17 A2H . . . B 2 3.475 -18.832 -20.251 1 45.66 ? C17 A2H 1542 A 1 
HETATM 24 N N18 A2H . . . B 2 2.269 -18.242 -20.746 1 45.31 ? N18 A2H 1542 A 1 
HETATM 25 O O19 A2H . . . B 2 4.174 -13.08 -20.621 1 56.84 ? O19 A2H 1542 A 1 
HETATM 26 O O1P A2H . . . B 2 3.622 -10.729 -27.021 1 62.81 ? O1P A2H 1542 A 1 
HETATM 27 C C2' A2H . . . B 2 3.059 -15.653 -23.82 1 45.7 ? C2' A2H 1542 A 1 
HETATM 28 O O2' A2H . . . B 2 3.07 -16.001 -22.441 1 40.63 ? O2' A2H 1542 A 1 
HETATM 29 C C20 A2H . . . B 2 4.4 -11.716 -20.217 1 58.6 ? C20 A2H 1542 A 1 
HETATM 30 C C21 A2H . . . B 2 3.754 -10.775 -21.227 1 59.53 ? C21 A2H 1542 A 1 
HETATM 31 O O2P A2H . . . B 2 3.583 -8.991 -25.226 1 69.7 ? O2P A2H 1542 A 1 
HETATM 32 C C3' A2H . . . B 2 4.394 -14.984 -24.022 1 44.59 ? C3' A2H 1542 A 1 
HETATM 33 O O3' A2H . . . B 2 5.182 -15.441 -22.923 1 47.04 ? O3' A2H 1542 A 1 
HETATM 34 O O3P A2H . . . B 2 5.838 -9.901 -26.021 1 54.33 ? O3P A2H 1542 A 1 
HETATM 35 C C4' A2H . . . B 2 4.075 -13.494 -23.927 1 47.72 ? C4' A2H 1542 A 1 
HETATM 36 O O4' A2H . . . B 2 2.663 -13.336 -23.975 1 43.55 ? O4' A2H 1542 A 1 
HETATM 37 C C5' A2H . . . B 2 4.625 -12.653 -25.052 1 52.66 ? C5' A2H 1542 A 1 
HETATM 38 O O5' A2H . . . B 2 4.284 -11.295 -24.76 1 59.71 ? O5' A2H 1542 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           569 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           38 
#