data_8BIG
#
_model_server_result.job_id            0rPuqBaX--CBXinW-dQBfg 
_model_server_result.datetime_utc      '2024-11-15 21:55:00' 
_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          8big 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"U","auth_seq_id":900}' 
#
_entry.id    8BIG 
#
_exptl.entry_id    8BIG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.411 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYL-L-HOMOCYSTEINE 
_entity.pdbx_number_of_molecules    8 
_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            8BIG 
_cell.length_a            59.06 
_cell.length_b            95.9 
_cell.length_c            522.99 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8BIG 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,I,J,K,AA 1 1 
C,M,CA 1 4 
B,E,L,S,T,BA,EA 2 1 
D,N,O,P,Q,R,DA 3 1 
H,Y,Z,HA 3 2 
G,V,W,X,GA 4 1 
F,U,FA 4 3 
#
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' 1_655 x+1,y,z 1 0 0 0 1 0 0 0 1 59.06 0 0 
3 'crystal symmetry operation' 3_544 -x,y-1/2,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 -47.95 -261.495 
4 'crystal symmetry operation' 4_555 x+1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 29.53 47.95 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 I N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 S N N 
? 2 U N N 
? 2 V N N 
? 2 Y 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 NE2 HIS 302 A HIS 301 1_555 J NI NI . A NI 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
metalc ? metalc2 J NI NI . A NI 402 1_555 B NE2 HIS 302 B HIS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? 
metalc ? metalc3 J NI NI . A NI 402 1_555 B NZ LYS 304 B LYS 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? 
metalc ? metalc4 J NI NI . A NI 402 1_555 BA O HOH . B HOH 1009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
metalc ? metalc5 C NE2 HIS 302 C HIS 301 1_555 O NI NI . D NI 402 1_465 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? 
metalc ? metalc6 D NE2 HIS 302 D HIS 301 1_555 O NI NI . D NI 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? 
metalc ? metalc7 O NI NI . D NI 402 1_555 DA O HOH . D HOH 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? 
metalc ? metalc8 O NI NI . D NI 402 1_555 DA O HOH . D HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? 
metalc ? metalc9 E NE2 HIS 302 E HIS 301 1_555 T NI NI . E NI 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
metalc ? metalc10 T NI NI . E NI 402 1_555 EA O HOH . E HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc11 T NI NI . E NI 402 1_555 G NE2 HIS 302 G HIS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc12 T NI NI . E NI 402 1_555 GA O HOH . G HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? 
#
_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 286 n n 
N HN1 SAH sing 287 n n 
N HN2 SAH sing 288 n n 
CA CB SAH sing 289 n n 
CA C SAH sing 290 n n 
CA HA SAH sing 291 n n 
CB CG SAH sing 292 n n 
CB HB1 SAH sing 293 n n 
CB HB2 SAH sing 294 n n 
CG SD SAH sing 295 n n 
CG HG1 SAH sing 296 n n 
CG HG2 SAH sing 297 n n 
SD C5' SAH sing 298 n n 
C O SAH doub 299 n n 
C OXT SAH sing 300 n n 
OXT HXT SAH sing 301 n n 
C5' C4' SAH sing 302 n n 
C5' "H5'1" SAH sing 303 n n 
C5' "H5'2" SAH sing 304 n n 
C4' O4' SAH sing 305 n n 
C4' C3' SAH sing 306 n n 
C4' H4' SAH sing 307 n n 
O4' C1' SAH sing 308 n n 
C3' O3' SAH sing 309 n n 
C3' C2' SAH sing 310 n n 
C3' H3' SAH sing 311 n n 
O3' HO3' SAH sing 312 n n 
C2' O2' SAH sing 313 n n 
C2' C1' SAH sing 314 n n 
C2' H2' SAH sing 315 n n 
O2' HO2' SAH sing 316 n n 
C1' N9 SAH sing 317 n n 
C1' H1' SAH sing 318 n n 
N9 C8 SAH sing 319 n y 
N9 C4 SAH sing 320 n y 
C8 N7 SAH doub 321 n y 
C8 H8 SAH sing 322 n n 
N7 C5 SAH sing 323 n y 
C5 C6 SAH sing 324 n y 
C5 C4 SAH doub 325 n y 
C6 N6 SAH sing 326 n n 
C6 N1 SAH doub 327 n y 
N6 HN61 SAH sing 328 n n 
N6 HN62 SAH sing 329 n n 
N1 C2 SAH sing 330 n y 
C2 N3 SAH doub 331 n y 
C2 H2 SAH sing 332 n n 
N3 C4 SAH sing 333 n y 
#
_atom_sites.entry_id                     8BIG 
_atom_sites.fract_transf_matrix[1][1]    0.016932 
_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]    0.010428 
_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]    0.001912 
_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
I 2 SAH A 1 401 900 SAH SAH . 
J 3 NI A 1 402 4 NI NI . 
K 4 CL A 1 403 6 CL CL . 
L 2 SAH B 1 900 900 SAH SAH . 
M 2 SAH C 1 900 900 SAH SAH . 
N 2 SAH D 1 401 900 SAH SAH . 
O 3 NI D 1 402 1 NI NI . 
P 3 NI D 1 403 2 NI NI . 
Q 4 CL D 1 404 5 CL CL . 
R 5 EDO D 1 405 9 EDO EDO . 
S 2 SAH E 1 401 900 SAH SAH . 
T 3 NI E 1 402 3 NI NI . 
U 2 SAH F 1 900 900 SAH SAH . 
V 2 SAH G 1 401 900 SAH SAH . 
W 6 MG G 1 402 8 MG MG . 
X 5 EDO G 1 403 10 EDO EDO . 
Y 2 SAH H 1 401 900 SAH SAH . 
Z 4 CL H 1 402 7 CL CL . 
AA 7 HOH A 1 501 89 HOH HOH . 
AA 7 HOH A 2 502 98 HOH HOH . 
AA 7 HOH A 3 503 103 HOH HOH . 
AA 7 HOH A 4 504 28 HOH HOH . 
AA 7 HOH A 5 505 12 HOH HOH . 
AA 7 HOH A 6 506 11 HOH HOH . 
AA 7 HOH A 7 507 97 HOH HOH . 
AA 7 HOH A 8 508 49 HOH HOH . 
AA 7 HOH A 9 509 43 HOH HOH . 
AA 7 HOH A 10 510 21 HOH HOH . 
AA 7 HOH A 11 511 39 HOH HOH . 
AA 7 HOH A 12 512 100 HOH HOH . 
AA 7 HOH A 13 513 60 HOH HOH . 
AA 7 HOH A 14 514 45 HOH HOH . 
AA 7 HOH A 15 515 13 HOH HOH . 
AA 7 HOH A 16 516 102 HOH HOH . 
AA 7 HOH A 17 517 61 HOH HOH . 
AA 7 HOH A 18 518 34 HOH HOH . 
AA 7 HOH A 19 519 108 HOH HOH . 
BA 7 HOH B 1 1001 35 HOH HOH . 
BA 7 HOH B 2 1002 77 HOH HOH . 
BA 7 HOH B 3 1003 38 HOH HOH . 
BA 7 HOH B 4 1004 36 HOH HOH . 
BA 7 HOH B 5 1005 26 HOH HOH . 
BA 7 HOH B 6 1006 44 HOH HOH . 
BA 7 HOH B 7 1007 99 HOH HOH . 
BA 7 HOH B 8 1008 107 HOH HOH . 
BA 7 HOH B 9 1009 20 HOH HOH . 
BA 7 HOH B 10 1010 40 HOH HOH . 
BA 7 HOH B 11 1011 96 HOH HOH . 
CA 7 HOH C 1 1001 29 HOH HOH . 
CA 7 HOH C 2 1002 14 HOH HOH . 
CA 7 HOH C 3 1003 95 HOH HOH . 
CA 7 HOH C 4 1004 22 HOH HOH . 
CA 7 HOH C 5 1005 55 HOH HOH . 
DA 7 HOH D 1 501 88 HOH HOH . 
DA 7 HOH D 2 502 30 HOH HOH . 
DA 7 HOH D 3 503 84 HOH HOH . 
DA 7 HOH D 4 504 33 HOH HOH . 
DA 7 HOH D 5 505 37 HOH HOH . 
DA 7 HOH D 6 506 90 HOH HOH . 
DA 7 HOH D 7 507 56 HOH HOH . 
DA 7 HOH D 8 508 16 HOH HOH . 
DA 7 HOH D 9 509 17 HOH HOH . 
DA 7 HOH D 10 510 101 HOH HOH . 
EA 7 HOH E 1 501 31 HOH HOH . 
EA 7 HOH E 2 502 42 HOH HOH . 
EA 7 HOH E 3 503 32 HOH HOH . 
EA 7 HOH E 4 504 19 HOH HOH . 
FA 7 HOH F 1 1001 53 HOH HOH . 
FA 7 HOH F 2 1002 63 HOH HOH . 
FA 7 HOH F 3 1003 62 HOH HOH . 
FA 7 HOH F 4 1004 75 HOH HOH . 
GA 7 HOH G 1 501 15 HOH HOH . 
GA 7 HOH G 2 502 27 HOH HOH . 
GA 7 HOH G 3 503 93 HOH HOH . 
GA 7 HOH G 4 504 87 HOH HOH . 
GA 7 HOH G 5 505 18 HOH HOH . 
HA 7 HOH H 1 501 104 HOH HOH . 
HA 7 HOH H 2 502 23 HOH HOH . 
HA 7 HOH H 3 503 24 HOH HOH . 
HA 7 HOH H 4 504 109 HOH HOH . 
HA 7 HOH H 5 505 106 HOH HOH . 
HA 7 HOH H 6 506 41 HOH HOH . 
HA 7 HOH H 7 507 57 HOH HOH . 
HA 7 HOH H 8 508 105 HOH HOH . 
HA 7 HOH H 9 509 25 HOH HOH . 
HA 7 HOH H 10 510 83 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 . . . U 2 -11.564 38.731 -114.872 1 108.68 ? N SAH 900 F 1 
HETATM 2 C CA SAH . . . U 2 -11.737 38.397 -116.32 1 109.35 ? CA SAH 900 F 1 
HETATM 3 C CB SAH . . . U 2 -13.1 38.867 -116.837 1 108.75 ? CB SAH 900 F 1 
HETATM 4 C CG SAH . . . U 2 -14.253 38.065 -116.28 1 108.76 ? CG SAH 900 F 1 
HETATM 5 S SD SAH . . . U 2 -15.813 38.331 -117.155 1 108.24 ? SD SAH 900 F 1 
HETATM 6 C C SAH . . . U 2 -10.622 39.062 -117.137 1 110.12 ? C SAH 900 F 1 
HETATM 7 O O SAH . . . U 2 -10.711 40.23 -117.515 1 110.09 ? O SAH 900 F 1 
HETATM 8 O OXT SAH . . . U 2 -9.604 38.436 -117.433 1 111.7 ? OXT SAH 900 F 1 
HETATM 9 C C5' SAH . . . U 2 -17.001 37.596 -116.004 1 108.41 ? C5' SAH 900 F 1 
HETATM 10 C C4' SAH . . . U 2 -16.569 36.258 -115.454 1 108.58 ? C4' SAH 900 F 1 
HETATM 11 O O4' SAH . . . U 2 -17.488 35.849 -114.416 1 108.56 ? O4' SAH 900 F 1 
HETATM 12 C C3' SAH . . . U 2 -16.538 35.12 -116.481 1 109.04 ? C3' SAH 900 F 1 
HETATM 13 O O3' SAH . . . U 2 -15.267 34.482 -116.483 1 108.7 ? O3' SAH 900 F 1 
HETATM 14 C C2' SAH . . . U 2 -17.656 34.179 -116.015 1 109.63 ? C2' SAH 900 F 1 
HETATM 15 O O2' SAH . . . U 2 -17.388 32.824 -116.305 1 111.35 ? O2' SAH 900 F 1 
HETATM 16 C C1' SAH . . . U 2 -17.674 34.46 -114.517 1 109.32 ? C1' SAH 900 F 1 
HETATM 17 N N9 SAH . . . U 2 -18.921 34.109 -113.851 1 108.43 ? N9 SAH 900 F 1 
HETATM 18 C C8 SAH . . . U 2 -20.19 34.376 -114.301 1 108.07 ? C8 SAH 900 F 1 
HETATM 19 N N7 SAH . . . U 2 -21.128 33.949 -113.495 1 108.2 ? N7 SAH 900 F 1 
HETATM 20 C C5 SAH . . . U 2 -20.438 33.368 -112.442 1 108.4 ? C5 SAH 900 F 1 
HETATM 21 C C6 SAH . . . U 2 -20.875 32.735 -111.263 1 108.44 ? C6 SAH 900 F 1 
HETATM 22 N N6 SAH . . . U 2 -22.156 32.581 -110.941 1 108.28 ? N6 SAH 900 F 1 
HETATM 23 N N1 SAH . . . U 2 -19.926 32.266 -110.417 1 108.46 ? N1 SAH 900 F 1 
HETATM 24 C C2 SAH . . . U 2 -18.638 32.425 -110.75 1 108.61 ? C2 SAH 900 F 1 
HETATM 25 N N3 SAH . . . U 2 -18.113 33.002 -111.828 1 108.47 ? N3 SAH 900 F 1 
HETATM 26 C C4 SAH . . . U 2 -19.075 33.46 -112.648 1 108.44 ? C4 SAH 900 F 1 
#
_model_server_stats.io_time_ms              44 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    62 
_model_server_stats.query_time_ms           340 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           26 
#