data_7U9Z
#
_model_server_result.job_id            vzbE989Rjj8DmerypW8UOw 
_model_server_result.datetime_utc      '2024-11-16 16:26:08' 
_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          7u9z 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":5004}' 
#
_entry.id    7U9Z 
#
_exptl.entry_id    7U9Z 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              152.111 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            XANTHINE 
_entity.pdbx_number_of_molecules    4 
_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            7U9Z 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7U9Z 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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,R,S,T,U,V,W,X,Y,Z,AA,BA 
_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    ? 
_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
? 6 L N N 
? 6 Q N N 
? 6 V N N 
? 6 AA 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
disulf ? disulf1 A SG CYS 4806 A CYS 4806 1_555 A SG CYS 4812 A CYS 4812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf2 F SG CYS 4806 B CYS 4806 1_555 F SG CYS 4812 B CYS 4812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf3 G SG CYS 4806 C CYS 4806 1_555 G SG CYS 4812 C CYS 4812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf4 H SG CYS 4806 D CYS 4806 1_555 H SG CYS 4812 D CYS 4812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc1 A OE1 GLU 3848 A GLU 3848 1_555 K CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? 
metalc ? metalc2 A OE1 GLU 3922 A GLU 3922 1_555 K CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? 
metalc ? metalc3 A SG CYS 4888 A CYS 4888 1_555 I ZN ZN . A ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc4 A SG CYS 4891 A CYS 4891 1_555 I ZN ZN . A ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? 
metalc ? metalc5 A NE2 HIS 4908 A HIS 4908 1_555 I ZN ZN . A ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc6 A ND1 HIS 4913 A HIS 4913 1_555 I ZN ZN . A ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc7 A O THR 4931 A THR 4931 1_555 K CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc8 F OE1 GLU 3848 B GLU 3848 1_555 P CA CA . B CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? 
metalc ? metalc9 F OE1 GLU 3922 B GLU 3922 1_555 P CA CA . B CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? 
metalc ? metalc10 F SG CYS 4888 B CYS 4888 1_555 N ZN ZN . B ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc11 F SG CYS 4891 B CYS 4891 1_555 N ZN ZN . B ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? 
metalc ? metalc12 F NE2 HIS 4908 B HIS 4908 1_555 N ZN ZN . B ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
metalc ? metalc13 F ND1 HIS 4913 B HIS 4913 1_555 N ZN ZN . B ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc14 F O THR 4931 B THR 4931 1_555 P CA CA . B CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? 
metalc ? metalc15 G OE1 GLU 3848 C GLU 3848 1_555 U CA CA . C CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? 
metalc ? metalc16 G OE1 GLU 3922 C GLU 3922 1_555 U CA CA . C CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? 
metalc ? metalc17 G SG CYS 4888 C CYS 4888 1_555 S ZN ZN . C ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc18 G SG CYS 4891 C CYS 4891 1_555 S ZN ZN . C ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? 
metalc ? metalc19 G NE2 HIS 4908 C HIS 4908 1_555 S ZN ZN . C ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc20 G ND1 HIS 4913 C HIS 4913 1_555 S ZN ZN . C ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc21 G O THR 4931 C THR 4931 1_555 U CA CA . C CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc22 H OE1 GLU 3848 D GLU 3848 1_555 Z CA CA . D CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? 
metalc ? metalc23 H OE1 GLU 3922 D GLU 3922 1_555 Z CA CA . D CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? 
metalc ? metalc24 H SG CYS 4888 D CYS 4888 1_555 X ZN ZN . D ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? 
metalc ? metalc25 H SG CYS 4891 D CYS 4891 1_555 X ZN ZN . D ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc26 H NE2 HIS 4908 D HIS 4908 1_555 X ZN ZN . D ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc27 H ND1 HIS 4913 D HIS 4913 1_555 X ZN ZN . D ZN 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc28 H O THR 4931 D THR 4931 1_555 Z CA CA . D CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
#
_chem_comp.formula           'C5 H4 N4 O2' 
_chem_comp.formula_weight    152.111 
_chem_comp.id                XAN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              XANTHINE 
_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
N9 C4 XAN sing 423 n y 
N9 C8 XAN sing 424 n y 
N9 HN9 XAN sing 425 n n 
C4 N3 XAN sing 426 n y 
C4 C5 XAN doub 427 n y 
N3 C2 XAN sing 428 n y 
N3 HN3 XAN sing 429 n n 
C2 O2 XAN doub 430 n n 
C2 N1 XAN sing 431 n y 
N1 C6 XAN sing 432 n y 
N1 HN1 XAN sing 433 n n 
C6 O6 XAN doub 434 n n 
C6 C5 XAN sing 435 n y 
C5 N7 XAN sing 436 n y 
N7 C8 XAN doub 437 n y 
C8 H8 XAN sing 438 n n 
#
_atom_sites.entry_id                     7U9Z 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 3 ZN A 1 5001 5001 ZN ZN . 
J 4 ATP A 1 5002 5002 ATP ATP . 
K 5 CA A 1 5003 5003 CA CA . 
L 6 XAN A 1 5004 5004 XAN XAN . 
M 4 ATP A 1 5005 5005 ATP ATP . 
N 3 ZN B 1 5001 5001 ZN ZN . 
O 4 ATP B 1 5002 5002 ATP ATP . 
P 5 CA B 1 5003 5003 CA CA . 
Q 6 XAN B 1 5004 5004 XAN XAN . 
R 4 ATP B 1 5005 5005 ATP ATP . 
S 3 ZN C 1 5001 5001 ZN ZN . 
T 4 ATP C 1 5002 5002 ATP ATP . 
U 5 CA C 1 5003 5003 CA CA . 
V 6 XAN C 1 5004 5004 XAN XAN . 
W 4 ATP C 1 5005 5005 ATP ATP . 
X 3 ZN D 1 5001 5001 ZN ZN . 
Y 4 ATP D 1 5002 5002 ATP ATP . 
Z 5 CA D 1 5003 5003 CA CA . 
AA 6 XAN D 1 5004 5004 XAN XAN . 
BA 4 ATP D 1 5005 5005 ATP ATP . 
#
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 N9 XAN . . . L 6 172.358 225.779 246.903 1 129.87 ? N9 XAN 5004 A 1 
HETATM 2 C C4 XAN . . . L 6 172.701 226.354 248.064 1 129.87 ? C4 XAN 5004 A 1 
HETATM 3 N N3 XAN . . . L 6 173.692 226.103 248.937 1 129.87 ? N3 XAN 5004 A 1 
HETATM 4 C C2 XAN . . . L 6 173.815 226.851 250.057 1 129.87 ? C2 XAN 5004 A 1 
HETATM 5 O O2 XAN . . . L 6 174.689 226.628 250.825 1 129.87 ? O2 XAN 5004 A 1 
HETATM 6 N N1 XAN . . . L 6 172.941 227.855 250.301 1 129.87 ? N1 XAN 5004 A 1 
HETATM 7 C C6 XAN . . . L 6 171.965 228.106 249.444 1 129.87 ? C6 XAN 5004 A 1 
HETATM 8 O O6 XAN . . . L 6 171.2 228.985 249.658 1 129.87 ? O6 XAN 5004 A 1 
HETATM 9 C C5 XAN . . . L 6 171.838 227.344 248.303 1 129.87 ? C5 XAN 5004 A 1 
HETATM 10 N N7 XAN . . . L 6 170.961 227.381 247.291 1 129.87 ? N7 XAN 5004 A 1 
HETATM 11 C C8 XAN . . . L 6 171.285 226.415 246.428 1 129.87 ? C8 XAN 5004 A 1 
#
_model_server_stats.io_time_ms              59 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    199 
_model_server_stats.query_time_ms           349 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           11 
#