data_4U7T
#
_model_server_result.job_id            W9jF3o5l67FdLi1jcAW9QQ 
_model_server_result.datetime_utc      '2025-01-02 19:58:48' 
_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          4u7t 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":1004}' 
#
_entry.id    4U7T 
#
_exptl.entry_id    4U7T 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.411 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYL-L-HOMOCYSTEINE 
_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         120 
_cell.entry_id            4U7T 
_cell.length_a            183.823 
_cell.length_b            183.823 
_cell.length_c            123.265 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4U7T 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_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,M,N,O,P,Q 
_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
? 5 J N N 
? 5 N N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_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
_struct_conn.pdbx_value_order
metalc ? metalc1 A SG CYS 27 A CYS 494 1_555 G ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc2 A SG CYS 30 A CYS 497 1_555 G ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc3 A SG CYS 47 A CYS 514 1_555 G ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc4 A SG CYS 50 A CYS 517 1_555 G ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? 
metalc ? metalc5 A SG CYS 70 A CYS 537 1_555 H ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.566 ? 
metalc ? metalc6 A SG CYS 73 A CYS 540 1_555 H ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc7 A SG CYS 82 A CYS 549 1_555 I ZN ZN . A ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? 
metalc ? metalc8 A SG CYS 87 A CYS 554 1_555 I ZN ZN . A ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? 
metalc ? metalc9 A SG CYS 92 A CYS 559 1_555 H ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc10 A SG CYS 95 A CYS 562 1_555 H ZN ZN . A ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
metalc ? metalc11 A SG CYS 116 A CYS 583 1_555 I ZN ZN . A ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? 
metalc ? metalc12 A SG CYS 119 A CYS 586 1_555 I ZN ZN . A ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? 
metalc ? metalc13 C SG CYS 27 C CYS 494 1_555 K ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? 
metalc ? metalc14 C SG CYS 30 C CYS 497 1_555 K ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc15 C SG CYS 47 C CYS 514 1_555 K ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? 
metalc ? metalc16 C SG CYS 50 C CYS 517 1_555 K ZN ZN . C ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc17 C SG CYS 70 C CYS 537 1_555 L ZN ZN . C ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? 
metalc ? metalc18 C SG CYS 73 C CYS 540 1_555 L ZN ZN . C ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc19 C SG CYS 82 C CYS 549 1_555 M ZN ZN . C ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? 
metalc ? metalc20 C SG CYS 87 C CYS 554 1_555 M ZN ZN . C ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? 
metalc ? metalc21 C SG CYS 92 C CYS 559 1_555 L ZN ZN . C ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc22 C SG CYS 95 C CYS 562 1_555 L ZN ZN . C ZN 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc23 C SG CYS 116 C CYS 583 1_555 M ZN ZN . C ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc24 C SG CYS 119 C CYS 586 1_555 M ZN ZN . C ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
#
_chem_comp.formula           'C14 H20 N6 O5 S' 
_chem_comp.formula_weight    384.411 
_chem_comp.id                SAH 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              S-ADENOSYL-L-HOMOCYSTEINE 
_chem_comp.type              'l-peptide linking' 
_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 SAH sing 277 n n 
N HN1 SAH sing 278 n n 
N HN2 SAH sing 279 n n 
CA CB SAH sing 280 n n 
CA C SAH sing 281 n n 
CA HA SAH sing 282 n n 
CB CG SAH sing 283 n n 
CB HB1 SAH sing 284 n n 
CB HB2 SAH sing 285 n n 
CG SD SAH sing 286 n n 
CG HG1 SAH sing 287 n n 
CG HG2 SAH sing 288 n n 
SD C5' SAH sing 289 n n 
C O SAH doub 290 n n 
C OXT SAH sing 291 n n 
OXT HXT SAH sing 292 n n 
C5' C4' SAH sing 293 n n 
C5' "H5'1" SAH sing 294 n n 
C5' "H5'2" SAH sing 295 n n 
C4' O4' SAH sing 296 n n 
C4' C3' SAH sing 297 n n 
C4' H4' SAH sing 298 n n 
O4' C1' SAH sing 299 n n 
C3' O3' SAH sing 300 n n 
C3' C2' SAH sing 301 n n 
C3' H3' SAH sing 302 n n 
O3' HO3' SAH sing 303 n n 
C2' O2' SAH sing 304 n n 
C2' C1' SAH sing 305 n n 
C2' H2' SAH sing 306 n n 
O2' HO2' SAH sing 307 n n 
C1' N9 SAH sing 308 n n 
C1' H1' SAH sing 309 n n 
N9 C8 SAH sing 310 n y 
N9 C4 SAH sing 311 n y 
C8 N7 SAH doub 312 n y 
C8 H8 SAH sing 313 n n 
N7 C5 SAH sing 314 n y 
C5 C6 SAH sing 315 n y 
C5 C4 SAH doub 316 n y 
C6 N6 SAH sing 317 n n 
C6 N1 SAH doub 318 n y 
N6 HN61 SAH sing 319 n n 
N6 HN62 SAH sing 320 n n 
N1 C2 SAH sing 321 n y 
C2 N3 SAH doub 322 n y 
C2 H2 SAH sing 323 n n 
N3 C4 SAH sing 324 n y 
#
_atom_sites.entry_id                     4U7T 
_atom_sites.fract_transf_matrix[1][1]    0.00544 
_atom_sites.fract_transf_matrix[1][2]    0.003141 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006282 
_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]    0.008113 
_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
G 4 ZN A 1 1001 1 ZN ZN . 
H 4 ZN A 1 1002 2 ZN ZN . 
I 4 ZN A 1 1003 3 ZN ZN . 
J 5 SAH A 1 1004 4 SAH SAH . 
K 4 ZN C 1 1001 1 ZN ZN . 
L 4 ZN C 1 1002 2 ZN ZN . 
M 4 ZN C 1 1003 3 ZN ZN . 
N 5 SAH C 1 1004 4 SAH SAH . 
O 6 HOH A 1 1101 1 HOH HOH . 
O 6 HOH A 2 1102 2 HOH HOH . 
O 6 HOH A 3 1103 3 HOH HOH . 
O 6 HOH A 4 1104 4 HOH HOH . 
O 6 HOH A 5 1105 5 HOH HOH . 
O 6 HOH A 6 1106 11 HOH HOH . 
P 6 HOH C 1 1101 6 HOH HOH . 
P 6 HOH C 2 1102 7 HOH HOH . 
P 6 HOH C 3 1103 8 HOH HOH . 
Q 6 HOH D 1 401 9 HOH HOH . 
Q 6 HOH D 2 402 10 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 SAH . . . J 5 20.042 67.251 -3.079 1 48.71 ? N SAH 1004 A 1 
HETATM 2 C CA SAH . . . J 5 19.128 66.183 -3.438 1 44.04 ? CA SAH 1004 A 1 
HETATM 3 C CB SAH . . . J 5 19.612 64.867 -2.854 1 45.79 ? CB SAH 1004 A 1 
HETATM 4 C CG SAH . . . J 5 19.721 63.708 -3.835 1 51.7 ? CG SAH 1004 A 1 
HETATM 5 S SD SAH . . . J 5 20.523 62.314 -3.008 1 77.45 ? SD SAH 1004 A 1 
HETATM 6 C C SAH . . . J 5 17.769 66.627 -2.907 1 55.37 ? C SAH 1004 A 1 
HETATM 7 O O SAH . . . J 5 16.728 65.906 -2.906 1 52.73 ? O SAH 1004 A 1 
HETATM 8 O OXT SAH . . . J 5 17.733 67.795 -2.471 1 54.15 ? OXT SAH 1004 A 1 
HETATM 9 C C5' SAH . . . J 5 21.032 61.435 -4.53 1 67.33 ? C5' SAH 1004 A 1 
HETATM 10 C C4' SAH . . . J 5 20.137 61.464 -5.782 1 64.19 ? C4' SAH 1004 A 1 
HETATM 11 O O4' SAH . . . J 5 20.868 60.978 -6.903 1 65.5 ? O4' SAH 1004 A 1 
HETATM 12 C C3' SAH . . . J 5 18.895 60.58 -5.731 1 62.71 ? C3' SAH 1004 A 1 
HETATM 13 O O3' SAH . . . J 5 17.783 61.414 -5.953 1 62.01 ? O3' SAH 1004 A 1 
HETATM 14 C C2' SAH . . . J 5 19.022 59.605 -6.894 1 64.2 ? C2' SAH 1004 A 1 
HETATM 15 O O2' SAH . . . J 5 17.807 59.375 -7.573 1 58.44 ? O2' SAH 1004 A 1 
HETATM 16 C C1' SAH . . . J 5 19.982 60.337 -7.813 1 64.09 ? C1' SAH 1004 A 1 
HETATM 17 N N9 SAH . . . J 5 20.642 59.465 -8.829 1 60.93 ? N9 SAH 1004 A 1 
HETATM 18 C C8 SAH . . . J 5 20.899 58.123 -8.741 1 56.72 ? C8 SAH 1004 A 1 
HETATM 19 N N7 SAH . . . J 5 21.502 57.713 -9.882 1 51.05 ? N7 SAH 1004 A 1 
HETATM 20 C C5 SAH . . . J 5 21.645 58.774 -10.703 1 53.96 ? C5 SAH 1004 A 1 
HETATM 21 C C6 SAH . . . J 5 22.201 58.904 -11.977 1 54.71 ? C6 SAH 1004 A 1 
HETATM 22 N N6 SAH . . . J 5 22.726 57.854 -12.612 1 47.5 ? N6 SAH 1004 A 1 
HETATM 23 N N1 SAH . . . J 5 22.196 60.14 -12.575 1 54.82 ? N1 SAH 1004 A 1 
HETATM 24 C C2 SAH . . . J 5 21.659 61.234 -11.917 1 55.06 ? C2 SAH 1004 A 1 
HETATM 25 N N3 SAH . . . J 5 21.115 61.099 -10.656 1 55.89 ? N3 SAH 1004 A 1 
HETATM 26 C C4 SAH . . . J 5 21.104 59.88 -10.059 1 56.56 ? C4 SAH 1004 A 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           504 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           26 
#