data_4BMZ
#
_model_server_result.job_id            mboUvepDzfeVQUOepzwSOg 
_model_server_result.datetime_utc      '2024-11-26 21:27:26' 
_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          4bmz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1232}' 
#
_entry.id    4BMZ 
#
_exptl.entry_id    4BMZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              297.334 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-DEOXY-5'-METHYLTHIOADENOSINE" 
_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          104.96 
_cell.angle_gamma         90 
_cell.entry_id            4BMZ 
_cell.length_a            67.445 
_cell.length_b            67.746 
_cell.length_c            100.089 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4BMZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 1 2 1' 
#
_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 
_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
? 2 C N N 
? 2 D N N 
#
_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 237 n n 
CS HCS1 MTA sing 238 n n 
CS HCS2 MTA sing 239 n n 
CS HCS3 MTA sing 240 n n 
S5' C5' MTA sing 241 n n 
C5' C4' MTA sing 242 n n 
C5' "H5'1" MTA sing 243 n n 
C5' "H5'2" MTA sing 244 n n 
C4' O4' MTA sing 245 n n 
C4' C3' MTA sing 246 n n 
C4' H4' MTA sing 247 n n 
O4' C1' MTA sing 248 n n 
C2' O2' MTA sing 249 n n 
C2' C3' MTA sing 250 n n 
C2' C1' MTA sing 251 n n 
C2' H2' MTA sing 252 n n 
O2' HO2' MTA sing 253 n n 
C3' O3' MTA sing 254 n n 
C3' H3' MTA sing 255 n n 
O3' H3T MTA sing 256 n n 
C1' N9 MTA sing 257 n n 
C1' H1' MTA sing 258 n n 
N9 C8 MTA sing 259 n y 
N9 C4 MTA sing 260 n y 
C8 N7 MTA doub 261 n y 
C8 H8 MTA sing 262 n n 
N7 C5 MTA sing 263 n y 
C5 C6 MTA sing 264 n y 
C5 C4 MTA doub 265 n y 
C6 N6 MTA sing 266 n n 
C6 N1 MTA doub 267 n y 
N6 H61 MTA sing 268 n n 
N6 H62 MTA sing 269 n n 
N1 C2 MTA sing 270 n y 
C2 N3 MTA doub 271 n y 
C2 H2 MTA sing 272 n n 
N3 C4 MTA sing 273 n y 
#
_atom_sites.entry_id                     4BMZ 
_atom_sites.fract_transf_matrix[1][1]    0.014827 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003962 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014761 
_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]    0.010342 
_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 2 MTA A 1 1232 1232 MTA MTA . 
D 2 MTA B 1 1232 1232 MTA MTA . 
E 3 HOH A 1 2001 2001 HOH HOH . 
E 3 HOH A 2 2002 2002 HOH HOH . 
E 3 HOH A 3 2003 2003 HOH HOH . 
E 3 HOH A 4 2004 2004 HOH HOH . 
E 3 HOH A 5 2005 2005 HOH HOH . 
E 3 HOH A 6 2006 2006 HOH HOH . 
E 3 HOH A 7 2007 2007 HOH HOH . 
E 3 HOH A 8 2008 2008 HOH HOH . 
E 3 HOH A 9 2009 2009 HOH HOH . 
E 3 HOH A 10 2010 2010 HOH HOH . 
E 3 HOH A 11 2011 2011 HOH HOH . 
E 3 HOH A 12 2012 2012 HOH HOH . 
E 3 HOH A 13 2013 2013 HOH HOH . 
E 3 HOH A 14 2014 2014 HOH HOH . 
E 3 HOH A 15 2015 2015 HOH HOH . 
E 3 HOH A 16 2016 2016 HOH HOH . 
E 3 HOH A 17 2017 2017 HOH HOH . 
E 3 HOH A 18 2018 2018 HOH HOH . 
E 3 HOH A 19 2019 2019 HOH HOH . 
E 3 HOH A 20 2020 2020 HOH HOH . 
E 3 HOH A 21 2021 2021 HOH HOH . 
E 3 HOH A 22 2022 2022 HOH HOH . 
E 3 HOH A 23 2023 2023 HOH HOH . 
E 3 HOH A 24 2024 2024 HOH HOH . 
E 3 HOH A 25 2025 2025 HOH HOH . 
E 3 HOH A 26 2026 2026 HOH HOH . 
E 3 HOH A 27 2027 2027 HOH HOH . 
E 3 HOH A 28 2028 2028 HOH HOH . 
E 3 HOH A 29 2029 2029 HOH HOH . 
E 3 HOH A 30 2030 2030 HOH HOH . 
E 3 HOH A 31 2031 2031 HOH HOH . 
E 3 HOH A 32 2032 2032 HOH HOH . 
E 3 HOH A 33 2033 2033 HOH HOH . 
E 3 HOH A 34 2034 2034 HOH HOH . 
E 3 HOH A 35 2035 2035 HOH HOH . 
E 3 HOH A 36 2036 2036 HOH HOH . 
E 3 HOH A 37 2037 2037 HOH HOH . 
E 3 HOH A 38 2038 2038 HOH HOH . 
E 3 HOH A 39 2039 2039 HOH HOH . 
E 3 HOH A 40 2040 2040 HOH HOH . 
E 3 HOH A 41 2041 2041 HOH HOH . 
E 3 HOH A 42 2042 2042 HOH HOH . 
E 3 HOH A 43 2043 2043 HOH HOH . 
E 3 HOH A 44 2044 2044 HOH HOH . 
E 3 HOH A 45 2045 2045 HOH HOH . 
E 3 HOH A 46 2046 2046 HOH HOH . 
E 3 HOH A 47 2047 2047 HOH HOH . 
E 3 HOH A 48 2048 2048 HOH HOH . 
E 3 HOH A 49 2049 2049 HOH HOH . 
E 3 HOH A 50 2050 2050 HOH HOH . 
E 3 HOH A 51 2051 2051 HOH HOH . 
E 3 HOH A 52 2052 2052 HOH HOH . 
E 3 HOH A 53 2053 2053 HOH HOH . 
E 3 HOH A 54 2054 2054 HOH HOH . 
E 3 HOH A 55 2055 2055 HOH HOH . 
E 3 HOH A 56 2056 2056 HOH HOH . 
E 3 HOH A 57 2057 2057 HOH HOH . 
E 3 HOH A 58 2058 2058 HOH HOH . 
E 3 HOH A 59 2059 2059 HOH HOH . 
E 3 HOH A 60 2060 2060 HOH HOH . 
E 3 HOH A 61 2061 2061 HOH HOH . 
E 3 HOH A 62 2062 2062 HOH HOH . 
E 3 HOH A 63 2063 2063 HOH HOH . 
E 3 HOH A 64 2064 2064 HOH HOH . 
E 3 HOH A 65 2065 2065 HOH HOH . 
E 3 HOH A 66 2066 2066 HOH HOH . 
E 3 HOH A 67 2067 2067 HOH HOH . 
E 3 HOH A 68 2068 2068 HOH HOH . 
E 3 HOH A 69 2069 2069 HOH HOH . 
E 3 HOH A 70 2070 2070 HOH HOH . 
E 3 HOH A 71 2071 2071 HOH HOH . 
E 3 HOH A 72 2072 2072 HOH HOH . 
E 3 HOH A 73 2073 2073 HOH HOH . 
E 3 HOH A 74 2074 2074 HOH HOH . 
E 3 HOH A 75 2075 2075 HOH HOH . 
E 3 HOH A 76 2076 2076 HOH HOH . 
E 3 HOH A 77 2077 2077 HOH HOH . 
E 3 HOH A 78 2078 2078 HOH HOH . 
E 3 HOH A 79 2079 2079 HOH HOH . 
E 3 HOH A 80 2080 2080 HOH HOH . 
E 3 HOH A 81 2081 2081 HOH HOH . 
E 3 HOH A 82 2082 2082 HOH HOH . 
E 3 HOH A 83 2083 2083 HOH HOH . 
E 3 HOH A 84 2084 2084 HOH HOH . 
E 3 HOH A 85 2085 2085 HOH HOH . 
E 3 HOH A 86 2086 2086 HOH HOH . 
E 3 HOH A 87 2087 2087 HOH HOH . 
E 3 HOH A 88 2088 2088 HOH HOH . 
E 3 HOH A 89 2089 2089 HOH HOH . 
E 3 HOH A 90 2090 2090 HOH HOH . 
E 3 HOH A 91 2091 2091 HOH HOH . 
E 3 HOH A 92 2092 2092 HOH HOH . 
E 3 HOH A 93 2093 2093 HOH HOH . 
E 3 HOH A 94 2094 2094 HOH HOH . 
E 3 HOH A 95 2095 2095 HOH HOH . 
E 3 HOH A 96 2096 2096 HOH HOH . 
E 3 HOH A 97 2097 2097 HOH HOH . 
E 3 HOH A 98 2098 2098 HOH HOH . 
E 3 HOH A 99 2099 2099 HOH HOH . 
E 3 HOH A 100 2100 2100 HOH HOH . 
E 3 HOH A 101 2101 2101 HOH HOH . 
E 3 HOH A 102 2102 2102 HOH HOH . 
E 3 HOH A 103 2103 2103 HOH HOH . 
E 3 HOH A 104 2104 2104 HOH HOH . 
F 3 HOH B 1 2001 2001 HOH HOH . 
F 3 HOH B 2 2002 2002 HOH HOH . 
F 3 HOH B 3 2003 2003 HOH HOH . 
F 3 HOH B 4 2004 2004 HOH HOH . 
F 3 HOH B 5 2005 2005 HOH HOH . 
F 3 HOH B 6 2006 2006 HOH HOH . 
F 3 HOH B 7 2007 2007 HOH HOH . 
F 3 HOH B 8 2008 2008 HOH HOH . 
F 3 HOH B 9 2009 2009 HOH HOH . 
F 3 HOH B 10 2010 2010 HOH HOH . 
F 3 HOH B 11 2011 2011 HOH HOH . 
F 3 HOH B 12 2012 2012 HOH HOH . 
F 3 HOH B 13 2013 2013 HOH HOH . 
F 3 HOH B 14 2014 2014 HOH HOH . 
F 3 HOH B 15 2015 2015 HOH HOH . 
F 3 HOH B 16 2016 2016 HOH HOH . 
F 3 HOH B 17 2017 2017 HOH HOH . 
F 3 HOH B 18 2018 2018 HOH HOH . 
F 3 HOH B 19 2019 2019 HOH HOH . 
F 3 HOH B 20 2020 2020 HOH HOH . 
F 3 HOH B 21 2021 2021 HOH HOH . 
F 3 HOH B 22 2022 2022 HOH HOH . 
F 3 HOH B 23 2023 2023 HOH HOH . 
F 3 HOH B 24 2024 2024 HOH HOH . 
F 3 HOH B 25 2025 2025 HOH HOH . 
F 3 HOH B 26 2026 2026 HOH HOH . 
F 3 HOH B 27 2027 2027 HOH HOH . 
F 3 HOH B 28 2028 2028 HOH HOH . 
F 3 HOH B 29 2029 2029 HOH HOH . 
F 3 HOH B 30 2030 2030 HOH HOH . 
F 3 HOH B 31 2031 2031 HOH HOH . 
F 3 HOH B 32 2032 2032 HOH HOH . 
F 3 HOH B 33 2033 2033 HOH HOH . 
F 3 HOH B 34 2034 2034 HOH HOH . 
F 3 HOH B 35 2035 2035 HOH HOH . 
F 3 HOH B 36 2036 2036 HOH HOH . 
F 3 HOH B 37 2037 2037 HOH HOH . 
F 3 HOH B 38 2038 2038 HOH HOH . 
F 3 HOH B 39 2039 2039 HOH HOH . 
F 3 HOH B 40 2040 2040 HOH HOH . 
F 3 HOH B 41 2041 2041 HOH HOH . 
F 3 HOH B 42 2042 2042 HOH HOH . 
F 3 HOH B 43 2043 2043 HOH HOH . 
F 3 HOH B 44 2044 2044 HOH HOH . 
F 3 HOH B 45 2045 2045 HOH HOH . 
F 3 HOH B 46 2046 2046 HOH HOH . 
F 3 HOH B 47 2047 2047 HOH HOH . 
F 3 HOH B 48 2048 2048 HOH HOH . 
F 3 HOH B 49 2049 2049 HOH HOH . 
F 3 HOH B 50 2050 2050 HOH HOH . 
F 3 HOH B 51 2051 2051 HOH HOH . 
F 3 HOH B 52 2052 2052 HOH HOH . 
F 3 HOH B 53 2053 2053 HOH HOH . 
F 3 HOH B 54 2054 2054 HOH HOH . 
F 3 HOH B 55 2055 2055 HOH HOH . 
F 3 HOH B 56 2056 2056 HOH HOH . 
F 3 HOH B 57 2057 2057 HOH HOH . 
F 3 HOH B 58 2058 2058 HOH HOH . 
F 3 HOH B 59 2059 2059 HOH HOH . 
F 3 HOH B 60 2060 2060 HOH HOH . 
F 3 HOH B 61 2061 2061 HOH HOH . 
F 3 HOH B 62 2062 2062 HOH HOH . 
F 3 HOH B 63 2063 2063 HOH HOH . 
F 3 HOH B 64 2064 2064 HOH HOH . 
F 3 HOH B 65 2065 2065 HOH HOH . 
F 3 HOH B 66 2066 2066 HOH HOH . 
F 3 HOH B 67 2067 2067 HOH HOH . 
F 3 HOH B 68 2068 2068 HOH HOH . 
F 3 HOH B 69 2069 2069 HOH HOH . 
F 3 HOH B 70 2070 2070 HOH HOH . 
F 3 HOH B 71 2071 2071 HOH HOH . 
F 3 HOH B 72 2072 2072 HOH HOH . 
F 3 HOH B 73 2073 2073 HOH HOH . 
F 3 HOH B 74 2074 2074 HOH HOH . 
F 3 HOH B 75 2075 2075 HOH HOH . 
F 3 HOH B 76 2076 2076 HOH HOH . 
F 3 HOH B 77 2077 2077 HOH HOH . 
F 3 HOH B 78 2078 2078 HOH HOH . 
F 3 HOH B 79 2079 2079 HOH HOH . 
F 3 HOH B 80 2080 2080 HOH HOH . 
F 3 HOH B 81 2081 2081 HOH HOH . 
F 3 HOH B 82 2082 2082 HOH HOH . 
F 3 HOH B 83 2083 2083 HOH HOH . 
F 3 HOH B 84 2084 2084 HOH HOH . 
F 3 HOH B 85 2085 2085 HOH HOH . 
F 3 HOH B 86 2086 2086 HOH HOH . 
F 3 HOH B 87 2087 2087 HOH HOH . 
F 3 HOH B 88 2088 2088 HOH HOH . 
F 3 HOH B 89 2089 2089 HOH HOH . 
F 3 HOH B 90 2090 2090 HOH HOH . 
F 3 HOH B 91 2091 2091 HOH HOH . 
F 3 HOH B 92 2092 2092 HOH HOH . 
F 3 HOH B 93 2093 2093 HOH HOH . 
F 3 HOH B 94 2094 2094 HOH HOH . 
F 3 HOH B 95 2095 2095 HOH HOH . 
F 3 HOH B 96 2096 2096 HOH HOH . 
F 3 HOH B 97 2097 2097 HOH HOH . 
F 3 HOH B 98 2098 2098 HOH HOH . 
F 3 HOH B 99 2099 2099 HOH HOH . 
F 3 HOH B 100 2100 2100 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 . . . D 2 -18.089 14.502 -12.166 1 26.35 ? CS MTA 1232 B 1 
HETATM 2 S S5' MTA . . . D 2 -19.442 13.338 -12.3 1 28.76 ? S5' MTA 1232 B 1 
HETATM 3 C C5' MTA . . . D 2 -18.651 11.998 -11.454 1 26.53 ? C5' MTA 1232 B 1 
HETATM 4 C C4' MTA . . . D 2 -17.7 11.149 -12.344 1 25.22 ? C4' MTA 1232 B 1 
HETATM 5 O O4' MTA . . . D 2 -16.874 10.224 -11.594 1 26.27 ? O4' MTA 1232 B 1 
HETATM 6 C C2' MTA . . . D 2 -18.636 8.957 -12.319 1 20.97 ? C2' MTA 1232 B 1 
HETATM 7 O O2' MTA . . . D 2 -18.492 7.723 -12.939 1 24.06 ? O2' MTA 1232 B 1 
HETATM 8 C C3' MTA . . . D 2 -18.45 10.173 -13.248 1 23.8 ? C3' MTA 1232 B 1 
HETATM 9 O O3' MTA . . . D 2 -17.626 9.936 -14.435 1 23.89 ? O3' MTA 1232 B 1 
HETATM 10 C C1' MTA . . . D 2 -17.53 8.98 -11.261 1 25 ? C1' MTA 1232 B 1 
HETATM 11 N N9 MTA . . . D 2 -18.021 9.161 -9.836 1 23.55 ? N9 MTA 1232 B 1 
HETATM 12 C C8 MTA . . . D 2 -17.131 9.34 -8.789 1 22.62 ? C8 MTA 1232 B 1 
HETATM 13 N N7 MTA . . . D 2 -17.721 9.566 -7.604 1 21.27 ? N7 MTA 1232 B 1 
HETATM 14 C C5 MTA . . . D 2 -19.097 9.466 -7.838 1 22.25 ? C5 MTA 1232 B 1 
HETATM 15 C C6 MTA . . . D 2 -20.333 9.668 -7.057 1 22.63 ? C6 MTA 1232 B 1 
HETATM 16 N N6 MTA . . . D 2 -20.291 9.887 -5.693 1 21.57 ? N6 MTA 1232 B 1 
HETATM 17 N N1 MTA . . . D 2 -21.55 9.548 -7.701 1 22.43 ? N1 MTA 1232 B 1 
HETATM 18 C C2 MTA . . . D 2 -21.69 9.324 -9.008 1 24.42 ? C2 MTA 1232 B 1 
HETATM 19 N N3 MTA . . . D 2 -20.565 9.193 -9.812 1 24.13 ? N3 MTA 1232 B 1 
HETATM 20 C C4 MTA . . . D 2 -19.276 9.273 -9.317 1 23.96 ? C4 MTA 1232 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           20 
#