data_8VEX
#
_model_server_result.job_id            WvbcfA_nBzYEK9oiTmUrAQ 
_model_server_result.datetime_utc      '2025-07-10 11:56:05' 
_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          8vex 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":701}' 
#
_entry.id    8VEX 
#
_exptl.entry_id    8VEX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              297.334 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-DEOXY-5'-METHYLTHIOADENOSINE" 
_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            8VEX 
_cell.length_a            99.47 
_cell.length_b            136.35 
_cell.length_c            177.69 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VEX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 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,E,F,G,H,I 
_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                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_struct_conn.conn_type_id                   disulf 
_struct_conn.details                        ? 
_struct_conn.id                             disulf1 
_struct_conn.ptnr1_label_asym_id            B 
_struct_conn.ptnr1_label_atom_id            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             216 
_struct_conn.ptnr1_auth_asym_id             B 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              208 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            B 
_struct_conn.ptnr2_label_atom_id            SG 
_struct_conn.ptnr2_label_comp_id            CYS 
_struct_conn.ptnr2_label_seq_id             255 
_struct_conn.ptnr2_auth_asym_id             B 
_struct_conn.ptnr2_auth_comp_id             CYS 
_struct_conn.ptnr2_auth_seq_id              247 
_struct_conn.ptnr2_symmetry                 1_555 
_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                2.045 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C11 H15 N5 O3 S' 
_chem_comp.formula_weight    297.334 
_chem_comp.id                MTA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-DEOXY-5'-METHYLTHIOADENOSINE" 
_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
CS S5' MTA sing 303 n n 
CS HCS1 MTA sing 304 n n 
CS HCS2 MTA sing 305 n n 
CS HCS3 MTA sing 306 n n 
S5' C5' MTA sing 307 n n 
C5' C4' MTA sing 308 n n 
C5' "H5'1" MTA sing 309 n n 
C5' "H5'2" MTA sing 310 n n 
C4' O4' MTA sing 311 n n 
C4' C3' MTA sing 312 n n 
C4' H4' MTA sing 313 n n 
O4' C1' MTA sing 314 n n 
C2' O2' MTA sing 315 n n 
C2' C3' MTA sing 316 n n 
C2' C1' MTA sing 317 n n 
C2' H2' MTA sing 318 n n 
O2' HO2' MTA sing 319 n n 
C3' O3' MTA sing 320 n n 
C3' H3' MTA sing 321 n n 
O3' H3T MTA sing 322 n n 
C1' N9 MTA sing 323 n n 
C1' H1' MTA sing 324 n n 
N9 C8 MTA sing 325 n y 
N9 C4 MTA sing 326 n y 
C8 N7 MTA doub 327 n y 
C8 H8 MTA sing 328 n n 
N7 C5 MTA sing 329 n y 
C5 C6 MTA sing 330 n y 
C5 C4 MTA doub 331 n y 
C6 N6 MTA sing 332 n n 
C6 N1 MTA doub 333 n y 
N6 H61 MTA sing 334 n n 
N6 H62 MTA sing 335 n n 
N1 C2 MTA sing 336 n y 
C2 N3 MTA doub 337 n y 
C2 H2 MTA sing 338 n n 
N3 C4 MTA sing 339 n y 
#
_atom_sites.entry_id                     8VEX 
_atom_sites.fract_transf_matrix[1][1]    0.010053 
_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]    0.007334 
_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]    0.005628 
_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
C 3 MTA A 1 701 1 MTA MTA . 
D 4 A1AAR A 1 702 1 A1AAR LIG . 
E 5 CL A 1 703 1 CL CL . 
F 5 CL A 1 704 2 CL CL . 
G 6 GOL A 1 705 1 GOL GOL . 
H 7 HOH A 1 801 17 HOH HOH . 
H 7 HOH A 2 802 34 HOH HOH . 
H 7 HOH A 3 803 24 HOH HOH . 
H 7 HOH A 4 804 53 HOH HOH . 
H 7 HOH A 5 805 18 HOH HOH . 
H 7 HOH A 6 806 9 HOH HOH . 
H 7 HOH A 7 807 13 HOH HOH . 
H 7 HOH A 8 808 25 HOH HOH . 
H 7 HOH A 9 809 22 HOH HOH . 
H 7 HOH A 10 810 54 HOH HOH . 
H 7 HOH A 11 811 47 HOH HOH . 
H 7 HOH A 12 812 11 HOH HOH . 
H 7 HOH A 13 813 19 HOH HOH . 
H 7 HOH A 14 814 32 HOH HOH . 
H 7 HOH A 15 815 2 HOH HOH . 
H 7 HOH A 16 816 6 HOH HOH . 
H 7 HOH A 17 817 28 HOH HOH . 
H 7 HOH A 18 818 46 HOH HOH . 
H 7 HOH A 19 819 3 HOH HOH . 
H 7 HOH A 20 820 16 HOH HOH . 
H 7 HOH A 21 821 1 HOH HOH . 
H 7 HOH A 22 822 21 HOH HOH . 
H 7 HOH A 23 823 4 HOH HOH . 
H 7 HOH A 24 824 5 HOH HOH . 
H 7 HOH A 25 825 44 HOH HOH . 
H 7 HOH A 26 826 26 HOH HOH . 
H 7 HOH A 27 827 7 HOH HOH . 
H 7 HOH A 28 828 30 HOH HOH . 
H 7 HOH A 29 829 35 HOH HOH . 
H 7 HOH A 30 830 33 HOH HOH . 
H 7 HOH A 31 831 31 HOH HOH . 
H 7 HOH A 32 832 40 HOH HOH . 
H 7 HOH A 33 833 8 HOH HOH . 
H 7 HOH A 34 834 20 HOH HOH . 
H 7 HOH A 35 835 50 HOH HOH . 
H 7 HOH A 36 836 52 HOH HOH . 
H 7 HOH A 37 837 27 HOH HOH . 
H 7 HOH A 38 838 58 HOH HOH . 
H 7 HOH A 39 839 10 HOH HOH . 
H 7 HOH A 40 840 42 HOH HOH . 
H 7 HOH A 41 841 15 HOH HOH . 
H 7 HOH A 42 842 49 HOH HOH . 
H 7 HOH A 43 843 38 HOH HOH . 
H 7 HOH A 44 844 41 HOH HOH . 
H 7 HOH A 45 845 39 HOH HOH . 
H 7 HOH A 46 846 45 HOH HOH . 
H 7 HOH A 47 847 57 HOH HOH . 
H 7 HOH A 48 848 59 HOH HOH . 
H 7 HOH A 49 849 36 HOH HOH . 
H 7 HOH A 50 850 48 HOH HOH . 
H 7 HOH A 51 851 37 HOH HOH . 
H 7 HOH A 52 852 43 HOH HOH . 
H 7 HOH A 53 853 56 HOH HOH . 
H 7 HOH A 54 854 51 HOH HOH . 
I 7 HOH B 1 401 29 HOH HOH . 
I 7 HOH B 2 402 23 HOH HOH . 
I 7 HOH B 3 403 12 HOH HOH . 
I 7 HOH B 4 404 14 HOH HOH . 
I 7 HOH B 5 405 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 C CS MTA . . . C 3 21.498 -38.202 -6.177 1 72.05 ? CS MTA 701 A 1 
HETATM 2 S S5' MTA . . . C 3 20.183 -39.351 -6.475 1 71.83 ? S5' MTA 701 A 1 
HETATM 3 C C5' MTA . . . C 3 18.69 -38.65 -5.815 1 71.15 ? C5' MTA 701 A 1 
HETATM 4 C C4' MTA . . . C 3 18.866 -37.585 -4.714 1 70.61 ? C4' MTA 701 A 1 
HETATM 5 O O4' MTA . . . C 3 17.853 -36.588 -4.829 1 68.06 ? O4' MTA 701 A 1 
HETATM 6 C C2' MTA . . . C 3 17.475 -37.566 -2.715 1 68.12 ? C2' MTA 701 A 1 
HETATM 7 O O2' MTA . . . C 3 17.581 -37.276 -1.316 1 78.41 ? O2' MTA 701 A 1 
HETATM 8 C C3' MTA . . . C 3 18.767 -38.116 -3.284 1 69.58 ? C3' MTA 701 A 1 
HETATM 9 O O3' MTA . . . C 3 19.885 -37.594 -2.556 1 65.89 ? O3' MTA 701 A 1 
HETATM 10 C C1' MTA . . . C 3 17.277 -36.327 -3.558 1 65.14 ? C1' MTA 701 A 1 
HETATM 11 N N9 MTA . . . C 3 15.849 -36.107 -3.732 1 59.54 ? N9 MTA 701 A 1 
HETATM 12 C C8 MTA . . . C 3 15.003 -36.931 -4.351 1 59.18 ? C8 MTA 701 A 1 
HETATM 13 N N7 MTA . . . C 3 13.747 -36.422 -4.319 1 59.41 ? N7 MTA 701 A 1 
HETATM 14 C C5 MTA . . . C 3 13.803 -35.256 -3.67 1 56.93 ? C5 MTA 701 A 1 
HETATM 15 C C6 MTA . . . C 3 12.848 -34.208 -3.284 1 56.57 ? C6 MTA 701 A 1 
HETATM 16 N N6 MTA . . . C 3 11.547 -34.3 -3.596 1 57.48 ? N6 MTA 701 A 1 
HETATM 17 N N1 MTA . . . C 3 13.315 -33.143 -2.614 1 59.61 ? N1 MTA 701 A 1 
HETATM 18 C C2 MTA . . . C 3 14.623 -33.022 -2.288 1 64.8 ? C2 MTA 701 A 1 
HETATM 19 N N3 MTA . . . C 3 15.555 -33.946 -2.605 1 62.41 ? N3 MTA 701 A 1 
HETATM 20 C C4 MTA . . . C 3 15.2 -35.055 -3.285 1 58.98 ? C4 MTA 701 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           20 
#