data_2CDQ
#
_model_server_result.job_id            ZvGDn01NqfBvt-ADGpubAA 
_model_server_result.datetime_utc      '2024-11-14 21:00:57' 
_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          2cdq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":1500}' 
#
_entry.id    2CDQ 
#
_exptl.entry_id    2CDQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              398.437 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYLMETHIONINE 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            2CDQ 
_cell.length_a            117.342 
_cell.length_b            117.342 
_cell.length_c            255.283 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2CDQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        80 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 41' 
#
_pdbx_struct_assembly.method_details        PQS 
_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,J,K,L 
_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
? 4 F N N 
? 4 J N N 
#
_chem_comp.formula           'C15 H22 N6 O5 S' 
_chem_comp.formula_weight    398.437 
_chem_comp.id                SAM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              S-ADENOSYLMETHIONINE 
_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
N CA SAM sing 277 n n 
N HN1 SAM sing 278 n n 
N HN2 SAM sing 279 n n 
CA C SAM sing 280 n n 
CA CB SAM sing 281 n n 
CA HA SAM sing 282 n n 
C O SAM doub 283 n n 
C OXT SAM sing 284 n n 
CB CG SAM sing 285 n n 
CB HB1 SAM sing 286 n n 
CB HB2 SAM sing 287 n n 
CG SD SAM sing 288 n n 
CG HG1 SAM sing 289 n n 
CG HG2 SAM sing 290 n n 
SD CE SAM sing 291 n n 
SD C5' SAM sing 292 n n 
CE HE1 SAM sing 293 n n 
CE HE2 SAM sing 294 n n 
CE HE3 SAM sing 295 n n 
C5' C4' SAM sing 296 n n 
C5' "H5'1" SAM sing 297 n n 
C5' "H5'2" SAM sing 298 n n 
C4' O4' SAM sing 299 n n 
C4' C3' SAM sing 300 n n 
C4' H4' SAM sing 301 n n 
O4' C1' SAM sing 302 n n 
C3' O3' SAM sing 303 n n 
C3' C2' SAM sing 304 n n 
C3' H3' SAM sing 305 n n 
O3' HO3' SAM sing 306 n n 
C2' O2' SAM sing 307 n n 
C2' C1' SAM sing 308 n n 
C2' H2' SAM sing 309 n n 
O2' HO2' SAM sing 310 n n 
C1' N9 SAM sing 311 n n 
C1' H1' SAM sing 312 n n 
N9 C8 SAM sing 313 n y 
N9 C4 SAM sing 314 n y 
C8 N7 SAM doub 315 n y 
C8 H8 SAM sing 316 n n 
N7 C5 SAM sing 317 n y 
C5 C6 SAM sing 318 n y 
C5 C4 SAM doub 319 n y 
C6 N6 SAM sing 320 n n 
C6 N1 SAM doub 321 n y 
N6 HN61 SAM sing 322 n n 
N6 HN62 SAM sing 323 n n 
N1 C2 SAM sing 324 n y 
C2 N3 SAM doub 325 n y 
C2 H2 SAM sing 326 n n 
N3 C4 SAM sing 327 n y 
#
_atom_sites.entry_id                     2CDQ 
_atom_sites.fract_transf_matrix[1][1]    0.008522 
_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]    0.008522 
_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]    0.003917 
_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 LYS A 1 600 600 LYS LYS . 
D 2 LYS A 1 601 601 LYS LYS . 
E 3 TAR A 1 700 700 TAR TAR . 
F 4 SAM A 1 1500 1500 SAM SAM . 
G 2 LYS B 1 600 600 LYS LYS . 
H 2 LYS B 1 601 601 LYS LYS . 
I 3 TAR B 1 700 700 TAR TAR . 
J 4 SAM B 1 1500 1500 SAM SAM . 
K 5 HOH A 1 2001 2001 HOH HOH . 
K 5 HOH A 2 2002 2002 HOH HOH . 
K 5 HOH A 3 2003 2003 HOH HOH . 
K 5 HOH A 4 2004 2004 HOH HOH . 
K 5 HOH A 5 2005 2005 HOH HOH . 
K 5 HOH A 6 2006 2006 HOH HOH . 
K 5 HOH A 7 2007 2007 HOH HOH . 
K 5 HOH A 8 2008 2008 HOH HOH . 
K 5 HOH A 9 2009 2009 HOH HOH . 
K 5 HOH A 10 2010 2010 HOH HOH . 
K 5 HOH A 11 2011 2011 HOH HOH . 
K 5 HOH A 12 2012 2012 HOH HOH . 
K 5 HOH A 13 2013 2013 HOH HOH . 
K 5 HOH A 14 2014 2014 HOH HOH . 
K 5 HOH A 15 2015 2015 HOH HOH . 
K 5 HOH A 16 2016 2016 HOH HOH . 
K 5 HOH A 17 2017 2017 HOH HOH . 
K 5 HOH A 18 2018 2018 HOH HOH . 
K 5 HOH A 19 2019 2019 HOH HOH . 
K 5 HOH A 20 2020 2020 HOH HOH . 
K 5 HOH A 21 2021 2021 HOH HOH . 
K 5 HOH A 22 2022 2022 HOH HOH . 
K 5 HOH A 23 2023 2023 HOH HOH . 
K 5 HOH A 24 2024 2024 HOH HOH . 
K 5 HOH A 25 2025 2025 HOH HOH . 
K 5 HOH A 26 2026 2026 HOH HOH . 
K 5 HOH A 27 2027 2027 HOH HOH . 
K 5 HOH A 28 2028 2028 HOH HOH . 
K 5 HOH A 29 2029 2029 HOH HOH . 
K 5 HOH A 30 2030 2030 HOH HOH . 
K 5 HOH A 31 2031 2031 HOH HOH . 
K 5 HOH A 32 2032 2032 HOH HOH . 
K 5 HOH A 33 2033 2033 HOH HOH . 
K 5 HOH A 34 2034 2034 HOH HOH . 
K 5 HOH A 35 2035 2035 HOH HOH . 
K 5 HOH A 36 2036 2036 HOH HOH . 
K 5 HOH A 37 2037 2037 HOH HOH . 
K 5 HOH A 38 2038 2038 HOH HOH . 
K 5 HOH A 39 2039 2039 HOH HOH . 
K 5 HOH A 40 2040 2040 HOH HOH . 
K 5 HOH A 41 2041 2041 HOH HOH . 
K 5 HOH A 42 2042 2042 HOH HOH . 
K 5 HOH A 43 2043 2043 HOH HOH . 
K 5 HOH A 44 2044 2044 HOH HOH . 
K 5 HOH A 45 2045 2045 HOH HOH . 
K 5 HOH A 46 2046 2046 HOH HOH . 
K 5 HOH A 47 2047 2047 HOH HOH . 
K 5 HOH A 48 2048 2048 HOH HOH . 
K 5 HOH A 49 2049 2049 HOH HOH . 
K 5 HOH A 50 2050 2050 HOH HOH . 
K 5 HOH A 51 2051 2051 HOH HOH . 
K 5 HOH A 52 2052 2052 HOH HOH . 
K 5 HOH A 53 2053 2053 HOH HOH . 
K 5 HOH A 54 2054 2054 HOH HOH . 
K 5 HOH A 55 2055 2055 HOH HOH . 
K 5 HOH A 56 2056 2056 HOH HOH . 
K 5 HOH A 57 2057 2057 HOH HOH . 
K 5 HOH A 58 2058 2058 HOH HOH . 
K 5 HOH A 59 2059 2059 HOH HOH . 
K 5 HOH A 60 2060 2060 HOH HOH . 
K 5 HOH A 61 2061 2061 HOH HOH . 
K 5 HOH A 62 2062 2062 HOH HOH . 
K 5 HOH A 63 2063 2063 HOH HOH . 
K 5 HOH A 64 2064 2064 HOH HOH . 
K 5 HOH A 65 2065 2065 HOH HOH . 
K 5 HOH A 66 2066 2066 HOH HOH . 
K 5 HOH A 67 2067 2067 HOH HOH . 
K 5 HOH A 68 2068 2068 HOH HOH . 
K 5 HOH A 69 2069 2069 HOH HOH . 
K 5 HOH A 70 2070 2070 HOH HOH . 
K 5 HOH A 71 2071 2071 HOH HOH . 
K 5 HOH A 72 2072 2072 HOH HOH . 
K 5 HOH A 73 2073 2073 HOH HOH . 
K 5 HOH A 74 2074 2074 HOH HOH . 
K 5 HOH A 75 2075 2075 HOH HOH . 
K 5 HOH A 76 2076 2076 HOH HOH . 
K 5 HOH A 77 2077 2077 HOH HOH . 
K 5 HOH A 78 2078 2078 HOH HOH . 
K 5 HOH A 79 2079 2079 HOH HOH . 
K 5 HOH A 80 2080 2080 HOH HOH . 
K 5 HOH A 81 2081 2081 HOH HOH . 
K 5 HOH A 82 2082 2082 HOH HOH . 
K 5 HOH A 83 2083 2083 HOH HOH . 
K 5 HOH A 84 2084 2084 HOH HOH . 
K 5 HOH A 85 2085 2085 HOH HOH . 
K 5 HOH A 86 2086 2086 HOH HOH . 
K 5 HOH A 87 2087 2087 HOH HOH . 
K 5 HOH A 88 2088 2088 HOH HOH . 
K 5 HOH A 89 2089 2089 HOH HOH . 
K 5 HOH A 90 2090 2090 HOH HOH . 
K 5 HOH A 91 2091 2091 HOH HOH . 
K 5 HOH A 92 2092 2092 HOH HOH . 
K 5 HOH A 93 2093 2093 HOH HOH . 
K 5 HOH A 94 2094 2094 HOH HOH . 
K 5 HOH A 95 2095 2095 HOH HOH . 
K 5 HOH A 96 2096 2096 HOH HOH . 
L 5 HOH B 1 2001 2001 HOH HOH . 
L 5 HOH B 2 2002 2002 HOH HOH . 
L 5 HOH B 3 2003 2003 HOH HOH . 
L 5 HOH B 4 2004 2004 HOH HOH . 
L 5 HOH B 5 2005 2005 HOH HOH . 
L 5 HOH B 6 2006 2006 HOH HOH . 
L 5 HOH B 7 2007 2007 HOH HOH . 
L 5 HOH B 8 2008 2008 HOH HOH . 
L 5 HOH B 9 2009 2009 HOH HOH . 
L 5 HOH B 10 2010 2010 HOH HOH . 
L 5 HOH B 11 2011 2011 HOH HOH . 
L 5 HOH B 12 2012 2012 HOH HOH . 
L 5 HOH B 13 2013 2013 HOH HOH . 
L 5 HOH B 14 2014 2014 HOH HOH . 
L 5 HOH B 15 2015 2015 HOH HOH . 
L 5 HOH B 16 2016 2016 HOH HOH . 
L 5 HOH B 17 2017 2017 HOH HOH . 
L 5 HOH B 18 2018 2018 HOH HOH . 
L 5 HOH B 19 2019 2019 HOH HOH . 
L 5 HOH B 20 2020 2020 HOH HOH . 
L 5 HOH B 21 2021 2021 HOH HOH . 
L 5 HOH B 22 2022 2022 HOH HOH . 
L 5 HOH B 23 2023 2023 HOH HOH . 
L 5 HOH B 24 2024 2024 HOH HOH . 
L 5 HOH B 25 2025 2025 HOH HOH . 
L 5 HOH B 26 2026 2026 HOH HOH . 
L 5 HOH B 27 2027 2027 HOH HOH . 
L 5 HOH B 28 2028 2028 HOH HOH . 
L 5 HOH B 29 2029 2029 HOH HOH . 
L 5 HOH B 30 2030 2030 HOH HOH . 
L 5 HOH B 31 2031 2031 HOH HOH . 
L 5 HOH B 32 2032 2032 HOH HOH . 
L 5 HOH B 33 2033 2033 HOH HOH . 
L 5 HOH B 34 2034 2034 HOH HOH . 
L 5 HOH B 35 2035 2035 HOH HOH . 
L 5 HOH B 36 2036 2036 HOH HOH . 
L 5 HOH B 37 2037 2037 HOH HOH . 
L 5 HOH B 38 2038 2038 HOH HOH . 
L 5 HOH B 39 2039 2039 HOH HOH . 
L 5 HOH B 40 2040 2040 HOH HOH . 
L 5 HOH B 41 2041 2041 HOH HOH . 
L 5 HOH B 42 2042 2042 HOH HOH . 
L 5 HOH B 43 2043 2043 HOH HOH . 
L 5 HOH B 44 2044 2044 HOH HOH . 
L 5 HOH B 45 2045 2045 HOH HOH . 
L 5 HOH B 46 2046 2046 HOH HOH . 
L 5 HOH B 47 2047 2047 HOH HOH . 
L 5 HOH B 48 2048 2048 HOH HOH . 
L 5 HOH B 49 2049 2049 HOH HOH . 
L 5 HOH B 50 2050 2050 HOH HOH . 
L 5 HOH B 51 2051 2051 HOH HOH . 
L 5 HOH B 52 2052 2052 HOH HOH . 
L 5 HOH B 53 2053 2053 HOH HOH . 
L 5 HOH B 54 2054 2054 HOH HOH . 
L 5 HOH B 55 2055 2055 HOH HOH . 
L 5 HOH B 56 2056 2056 HOH HOH . 
L 5 HOH B 57 2057 2057 HOH HOH . 
L 5 HOH B 58 2058 2058 HOH HOH . 
L 5 HOH B 59 2059 2059 HOH HOH . 
L 5 HOH B 60 2060 2060 HOH HOH . 
L 5 HOH B 61 2061 2061 HOH HOH . 
L 5 HOH B 62 2062 2062 HOH HOH . 
L 5 HOH B 63 2063 2063 HOH HOH . 
L 5 HOH B 64 2064 2064 HOH HOH . 
L 5 HOH B 65 2065 2065 HOH HOH . 
L 5 HOH B 66 2066 2066 HOH HOH . 
L 5 HOH B 67 2067 2067 HOH HOH . 
L 5 HOH B 68 2068 2068 HOH HOH . 
L 5 HOH B 69 2069 2069 HOH HOH . 
L 5 HOH B 70 2070 2070 HOH HOH . 
L 5 HOH B 71 2071 2071 HOH HOH . 
L 5 HOH B 72 2072 2072 HOH HOH . 
L 5 HOH B 73 2073 2073 HOH HOH . 
L 5 HOH B 74 2074 2074 HOH HOH . 
L 5 HOH B 75 2075 2075 HOH HOH . 
L 5 HOH B 76 2076 2076 HOH HOH . 
L 5 HOH B 77 2077 2077 HOH HOH . 
L 5 HOH B 78 2078 2078 HOH HOH . 
L 5 HOH B 79 2079 2079 HOH HOH . 
L 5 HOH B 80 2080 2080 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 N N SAM . . . J 4 62.201 46.683 142.862 1 90.96 ? N SAM 1500 B 1 
HETATM 2 C CA SAM . . . J 4 61.42 46.14 143.973 1 91.24 ? CA SAM 1500 B 1 
HETATM 3 C C SAM . . . J 4 61.336 47.127 145.145 1 92.02 ? C SAM 1500 B 1 
HETATM 4 O O SAM . . . J 4 62.258 47.907 145.404 1 92.39 ? O SAM 1500 B 1 
HETATM 5 O OXT SAM . . . J 4 60.335 47.178 145.861 1 92.38 ? OXT SAM 1500 B 1 
HETATM 6 C CB SAM . . . J 4 61.959 44.765 144.403 1 90.68 ? CB SAM 1500 B 1 
HETATM 7 C CG SAM . . . J 4 63.266 44.72 145.206 1 89.12 ? CG SAM 1500 B 1 
HETATM 8 S SD SAM . . . J 4 64.765 44.588 144.179 1 86.46 ? SD SAM 1500 B 1 
HETATM 9 C CE SAM . . . J 4 64.709 42.878 143.576 1 86.35 ? CE SAM 1500 B 1 
HETATM 10 C C5' SAM . . . J 4 66.131 44.589 145.377 1 83.7 ? C5' SAM 1500 B 1 
HETATM 11 C C4' SAM . . . J 4 66.08 43.603 146.548 1 80.62 ? C4' SAM 1500 B 1 
HETATM 12 O O4' SAM . . . J 4 66.51 42.314 146.157 1 79.16 ? O4' SAM 1500 B 1 
HETATM 13 C C3' SAM . . . J 4 67.03 44.034 147.652 1 79.97 ? C3' SAM 1500 B 1 
HETATM 14 O O3' SAM . . . J 4 66.426 43.743 148.892 1 80.14 ? O3' SAM 1500 B 1 
HETATM 15 C C2' SAM . . . J 4 68.272 43.178 147.47 1 79 ? C2' SAM 1500 B 1 
HETATM 16 O O2' SAM . . . J 4 68.862 42.841 148.707 1 79.25 ? O2' SAM 1500 B 1 
HETATM 17 C C1' SAM . . . J 4 67.739 41.936 146.773 1 77.64 ? C1' SAM 1500 B 1 
HETATM 18 N N9 SAM . . . J 4 68.665 41.336 145.773 1 75.01 ? N9 SAM 1500 B 1 
HETATM 19 C C8 SAM . . . J 4 69.174 40.061 145.834 1 73.97 ? C8 SAM 1500 B 1 
HETATM 20 N N7 SAM . . . J 4 69.96 39.832 144.759 1 72.92 ? N7 SAM 1500 B 1 
HETATM 21 C C5 SAM . . . J 4 69.958 40.946 143.995 1 72.79 ? C5 SAM 1500 B 1 
HETATM 22 C C6 SAM . . . J 4 70.59 41.251 142.791 1 72.1 ? C6 SAM 1500 B 1 
HETATM 23 N N6 SAM . . . J 4 71.364 40.35 142.191 1 71.26 ? N6 SAM 1500 B 1 
HETATM 24 N N1 SAM . . . J 4 70.409 42.499 142.224 1 71.72 ? N1 SAM 1500 B 1 
HETATM 25 C C2 SAM . . . J 4 69.605 43.433 142.851 1 71.67 ? C2 SAM 1500 B 1 
HETATM 26 N N3 SAM . . . J 4 68.981 43.123 144.046 1 72.09 ? N3 SAM 1500 B 1 
HETATM 27 C C4 SAM . . . J 4 69.15 41.901 144.614 1 73.21 ? C4 SAM 1500 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    36 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           27 
#