data_5E5R
#
_model_server_result.job_id            pmEnJhuOuvY7gTSa6aB3gg 
_model_server_result.datetime_utc      '2025-09-13 14:24:32' 
_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          5e5r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":401}' 
#
_entry.id    5E5R 
#
_exptl.entry_id    5E5R 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              102.046 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'MALONATE ION' 
_entity.pdbx_number_of_molecules    3 
_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            5E5R 
_cell.length_a            74.138 
_cell.length_b            90.526 
_cell.length_c            147.448 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5E5R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,J,K 1 1 
C,D,F,G,H,I,L,M 2 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
? 3 E N N 
? 3 F N N 
? 3 I 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 23 A CYS 78 1_555 A SG CYS 206 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf2 B SG CYS 21 B CYS 144 1_555 B SG CYS 73 B CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 B SG CYS 126 B CYS 249 1_555 B SG CYS 174 B CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
disulf ? disulf4 C SG CYS 23 C CYS 78 1_555 C SG CYS 206 C CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf5 D SG CYS 21 D CYS 144 1_555 D SG CYS 73 D CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf6 D SG CYS 126 D CYS 249 1_555 D SG CYS 174 D CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
#
_chem_comp.formula           'C3 H2 O4 -2' 
_chem_comp.formula_weight    102.046 
_chem_comp.id                MLI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'MALONATE ION' 
_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
C1 C2 MLI sing 241 n n 
C1 C3 MLI sing 242 n n 
C1 H11 MLI sing 243 n n 
C1 H12 MLI sing 244 n n 
C2 O6 MLI doub 245 n n 
C2 O7 MLI sing 246 n n 
C3 O8 MLI doub 247 n n 
C3 O9 MLI sing 248 n n 
#
_atom_sites.entry_id                     5E5R 
_atom_sites.fract_transf_matrix[1][1]    0.013488 
_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]    0.011047 
_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]    0.006782 
_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
E 3 MLI A 1 401 2 MLI MLI . 
F 3 MLI C 1 401 1 MLI MLI . 
G 4 FMT C 1 402 3 FMT FMT . 
H 4 FMT C 1 403 4 FMT FMT . 
I 3 MLI D 1 401 5 MLI MLI . 
J 5 HOH A 1 501 28 HOH HOH . 
J 5 HOH A 2 502 56 HOH HOH . 
J 5 HOH A 3 503 58 HOH HOH . 
K 5 HOH B 1 401 2 HOH HOH . 
K 5 HOH B 2 402 35 HOH HOH . 
K 5 HOH B 3 403 19 HOH HOH . 
L 5 HOH C 1 501 4 HOH HOH . 
L 5 HOH C 2 502 31 HOH HOH . 
L 5 HOH C 3 503 47 HOH HOH . 
L 5 HOH C 4 504 1 HOH HOH . 
L 5 HOH C 5 505 20 HOH HOH . 
L 5 HOH C 6 506 36 HOH HOH . 
L 5 HOH C 7 507 29 HOH HOH . 
L 5 HOH C 8 508 6 HOH HOH . 
L 5 HOH C 9 509 37 HOH HOH . 
L 5 HOH C 10 510 22 HOH HOH . 
L 5 HOH C 11 511 38 HOH HOH . 
L 5 HOH C 12 512 45 HOH HOH . 
L 5 HOH C 13 513 15 HOH HOH . 
L 5 HOH C 14 514 23 HOH HOH . 
L 5 HOH C 15 515 46 HOH HOH . 
L 5 HOH C 16 516 41 HOH HOH . 
L 5 HOH C 17 517 5 HOH HOH . 
L 5 HOH C 18 518 48 HOH HOH . 
L 5 HOH C 19 519 40 HOH HOH . 
L 5 HOH C 20 520 32 HOH HOH . 
L 5 HOH C 21 521 3 HOH HOH . 
L 5 HOH C 22 522 42 HOH HOH . 
L 5 HOH C 23 523 43 HOH HOH . 
L 5 HOH C 24 524 59 HOH HOH . 
M 5 HOH D 1 501 34 HOH HOH . 
M 5 HOH D 2 502 14 HOH HOH . 
M 5 HOH D 3 503 18 HOH HOH . 
M 5 HOH D 4 504 52 HOH HOH . 
M 5 HOH D 5 505 49 HOH HOH . 
M 5 HOH D 6 506 27 HOH HOH . 
M 5 HOH D 7 507 9 HOH HOH . 
M 5 HOH D 8 508 39 HOH HOH . 
M 5 HOH D 9 509 25 HOH HOH . 
M 5 HOH D 10 510 13 HOH HOH . 
M 5 HOH D 11 511 11 HOH HOH . 
M 5 HOH D 12 512 57 HOH HOH . 
M 5 HOH D 13 513 7 HOH HOH . 
M 5 HOH D 14 514 8 HOH HOH . 
M 5 HOH D 15 515 53 HOH HOH . 
M 5 HOH D 16 516 12 HOH HOH . 
M 5 HOH D 17 517 33 HOH HOH . 
M 5 HOH D 18 518 17 HOH HOH . 
M 5 HOH D 19 519 55 HOH HOH . 
M 5 HOH D 20 520 44 HOH HOH . 
M 5 HOH D 21 521 30 HOH HOH . 
M 5 HOH D 22 522 21 HOH HOH . 
M 5 HOH D 23 523 54 HOH HOH . 
M 5 HOH D 24 524 24 HOH HOH . 
M 5 HOH D 25 525 26 HOH HOH . 
M 5 HOH D 26 526 50 HOH HOH . 
M 5 HOH D 27 527 51 HOH HOH . 
M 5 HOH D 28 528 16 HOH HOH . 
M 5 HOH D 29 529 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 C C1 MLI . . . E 3 -46.519 -31.456 7.374 1 103.75 ? C1 MLI 401 A 1 
HETATM 2 C C2 MLI . . . E 3 -45.059 -31.716 7.233 1 98.6 ? C2 MLI 401 A 1 
HETATM 3 C C3 MLI . . . E 3 -47.385 -31.446 6.157 1 107.56 ? C3 MLI 401 A 1 
HETATM 4 O O6 MLI . . . E 3 -44.633 -32.491 6.339 1 99.4 ? O6 MLI 401 A 1 
HETATM 5 O O7 MLI . . . E 3 -44.252 -31.159 8.016 1 93.74 1 O7 MLI 401 A 1 
HETATM 6 O O8 MLI . . . E 3 -47.702 -32.523 5.588 1 108.66 ? O8 MLI 401 A 1 
HETATM 7 O O9 MLI . . . E 3 -47.811 -30.358 5.695 1 114.74 1 O9 MLI 401 A 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           379 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           7 
#