data_5NCD
#
_model_server_result.job_id            ztxX1-kXM3DEko0E04DchQ 
_model_server_result.datetime_utc      '2024-11-28 21:07:01' 
_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          5ncd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":303}' 
#
_entry.id    5NCD 
#
_exptl.entry_id    5NCD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              192.124 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'CITRIC ACID' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          102.92 
_cell.angle_gamma         90 
_cell.entry_id            5NCD 
_cell.length_a            50.647 
_cell.length_b            117.438 
_cell.length_c            99.488 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5NCD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             I 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 OD1 ASP 51 A ASP 77 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? 
metalc ? metalc2 A NE2 HIS 100 A HIS 126 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? 
metalc ? metalc3 A NE2 HIS 104 A HIS 130 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc4 E O ACT . A ACT 301 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc5 E OXT ACT . A ACT 301 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? 
metalc ? metalc6 B OD1 ASP 51 B ASP 77 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? 
metalc ? metalc7 B NE2 HIS 100 B HIS 126 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
metalc ? metalc8 B NE2 HIS 104 B HIS 130 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
metalc ? metalc9 G O1 AHL . B AHL 301 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc10 G O2 AHL . B AHL 301 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? 
metalc ? metalc11 H ZN ZN . B ZN 302 1_555 O O HOH . B HOH 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
metalc ? metalc12 C OD1 ASP 51 C ASP 77 1_555 K ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? 
metalc ? metalc13 C NE2 HIS 100 C HIS 126 1_555 K ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc14 C NE2 HIS 104 C HIS 130 1_555 K ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? 
metalc ? metalc15 J O ACT . C ACT 301 1_555 K ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? 
metalc ? metalc16 J OXT ACT . C ACT 301 1_555 K ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc17 K ZN ZN . C ZN 302 1_555 P O HOH . C HOH 415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? 
metalc ? metalc18 D OD1 ASP 51 D ASP 77 1_555 M ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc19 D NE2 HIS 100 D HIS 126 1_555 M ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? 
metalc ? metalc20 D NE2 HIS 104 D HIS 130 1_555 M ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? 
metalc ? metalc21 L O ACT . D ACT 301 1_555 M ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? 
metalc ? metalc22 L OXT ACT . D ACT 301 1_555 M ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? 
metalc ? metalc23 M ZN ZN . D ZN 302 1_555 Q O HOH . D HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.897 ? 
#
_chem_comp.formula           'C6 H8 O7' 
_chem_comp.formula_weight    192.124 
_chem_comp.id                CIT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'CITRIC ACID' 
_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 O1 CIT doub 103 n n 
C1 O2 CIT sing 104 n n 
C1 C2 CIT sing 105 n n 
O2 HO2 CIT sing 106 n n 
C2 C3 CIT sing 107 n n 
C2 H21 CIT sing 108 n n 
C2 H22 CIT sing 109 n n 
C3 O7 CIT sing 110 n n 
C3 C4 CIT sing 111 n n 
C3 C6 CIT sing 112 n n 
O7 HO7 CIT sing 113 n n 
C4 C5 CIT sing 114 n n 
C4 H41 CIT sing 115 n n 
C4 H42 CIT sing 116 n n 
C5 O3 CIT doub 117 n n 
C5 O4 CIT sing 118 n n 
O4 HO4 CIT sing 119 n n 
C6 O5 CIT doub 120 n n 
C6 O6 CIT sing 121 n n 
O6 HO6 CIT sing 122 n n 
#
_atom_sites.entry_id                     5NCD 
_atom_sites.fract_transf_matrix[1][1]    0.019745 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00453 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008515 
_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]    0.010313 
_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 2 ACT A 1 301 300 ACT ACT . 
F 3 ZN A 1 302 280 ZN ZN . 
G 4 AHL B 1 301 300 AHL LIG . 
H 3 ZN B 1 302 280 ZN ZN . 
I 5 CIT B 1 303 1 CIT CIT . 
J 2 ACT C 1 301 300 ACT ACT . 
K 3 ZN C 1 302 280 ZN ZN . 
L 2 ACT D 1 301 300 ACT ACT . 
M 3 ZN D 1 302 280 ZN ZN . 
N 6 HOH A 1 401 47 HOH HOH . 
N 6 HOH A 2 402 7 HOH HOH . 
N 6 HOH A 3 403 35 HOH HOH . 
N 6 HOH A 4 404 69 HOH HOH . 
N 6 HOH A 5 405 84 HOH HOH . 
N 6 HOH A 6 406 53 HOH HOH . 
N 6 HOH A 7 407 71 HOH HOH . 
N 6 HOH A 8 408 3 HOH HOH . 
N 6 HOH A 9 409 140 HOH HOH . 
N 6 HOH A 10 410 40 HOH HOH . 
N 6 HOH A 11 411 32 HOH HOH . 
N 6 HOH A 12 412 123 HOH HOH . 
N 6 HOH A 13 413 67 HOH HOH . 
N 6 HOH A 14 414 51 HOH HOH . 
N 6 HOH A 15 415 112 HOH HOH . 
N 6 HOH A 16 416 56 HOH HOH . 
N 6 HOH A 17 417 89 HOH HOH . 
N 6 HOH A 18 418 137 HOH HOH . 
N 6 HOH A 19 419 131 HOH HOH . 
N 6 HOH A 20 420 24 HOH HOH . 
N 6 HOH A 21 421 15 HOH HOH . 
N 6 HOH A 22 422 44 HOH HOH . 
N 6 HOH A 23 423 138 HOH HOH . 
N 6 HOH A 24 424 104 HOH HOH . 
N 6 HOH A 25 425 57 HOH HOH . 
N 6 HOH A 26 426 49 HOH HOH . 
N 6 HOH A 27 427 26 HOH HOH . 
N 6 HOH A 28 428 115 HOH HOH . 
N 6 HOH A 29 429 68 HOH HOH . 
N 6 HOH A 30 430 64 HOH HOH . 
N 6 HOH A 31 431 21 HOH HOH . 
N 6 HOH A 32 432 134 HOH HOH . 
N 6 HOH A 33 433 48 HOH HOH . 
N 6 HOH A 34 434 90 HOH HOH . 
N 6 HOH A 35 435 133 HOH HOH . 
N 6 HOH A 36 436 135 HOH HOH . 
N 6 HOH A 37 437 87 HOH HOH . 
N 6 HOH A 38 438 100 HOH HOH . 
N 6 HOH A 39 439 94 HOH HOH . 
O 6 HOH B 1 401 80 HOH HOH . 
O 6 HOH B 2 402 59 HOH HOH . 
O 6 HOH B 3 403 38 HOH HOH . 
O 6 HOH B 4 404 109 HOH HOH . 
O 6 HOH B 5 405 17 HOH HOH . 
O 6 HOH B 6 406 2 HOH HOH . 
O 6 HOH B 7 407 72 HOH HOH . 
O 6 HOH B 8 408 106 HOH HOH . 
O 6 HOH B 9 409 10 HOH HOH . 
O 6 HOH B 10 410 128 HOH HOH . 
O 6 HOH B 11 411 63 HOH HOH . 
O 6 HOH B 12 412 73 HOH HOH . 
O 6 HOH B 13 413 16 HOH HOH . 
O 6 HOH B 14 414 14 HOH HOH . 
O 6 HOH B 15 415 130 HOH HOH . 
O 6 HOH B 16 416 62 HOH HOH . 
O 6 HOH B 17 417 23 HOH HOH . 
O 6 HOH B 18 418 88 HOH HOH . 
O 6 HOH B 19 419 4 HOH HOH . 
O 6 HOH B 20 420 52 HOH HOH . 
O 6 HOH B 21 421 36 HOH HOH . 
O 6 HOH B 22 422 37 HOH HOH . 
O 6 HOH B 23 423 12 HOH HOH . 
O 6 HOH B 24 424 83 HOH HOH . 
O 6 HOH B 25 425 22 HOH HOH . 
O 6 HOH B 26 426 18 HOH HOH . 
O 6 HOH B 27 427 30 HOH HOH . 
O 6 HOH B 28 428 65 HOH HOH . 
O 6 HOH B 29 429 60 HOH HOH . 
O 6 HOH B 30 430 46 HOH HOH . 
O 6 HOH B 31 431 82 HOH HOH . 
O 6 HOH B 32 432 50 HOH HOH . 
O 6 HOH B 33 433 117 HOH HOH . 
O 6 HOH B 34 434 145 HOH HOH . 
O 6 HOH B 35 435 124 HOH HOH . 
O 6 HOH B 36 436 98 HOH HOH . 
O 6 HOH B 37 437 136 HOH HOH . 
O 6 HOH B 38 438 45 HOH HOH . 
O 6 HOH B 39 439 85 HOH HOH . 
O 6 HOH B 40 440 116 HOH HOH . 
O 6 HOH B 41 441 101 HOH HOH . 
O 6 HOH B 42 442 122 HOH HOH . 
O 6 HOH B 43 443 121 HOH HOH . 
O 6 HOH B 44 444 55 HOH HOH . 
O 6 HOH B 45 445 129 HOH HOH . 
P 6 HOH C 1 401 27 HOH HOH . 
P 6 HOH C 2 402 33 HOH HOH . 
P 6 HOH C 3 403 34 HOH HOH . 
P 6 HOH C 4 404 31 HOH HOH . 
P 6 HOH C 5 405 78 HOH HOH . 
P 6 HOH C 6 406 20 HOH HOH . 
P 6 HOH C 7 407 139 HOH HOH . 
P 6 HOH C 8 408 99 HOH HOH . 
P 6 HOH C 9 409 1 HOH HOH . 
P 6 HOH C 10 410 54 HOH HOH . 
P 6 HOH C 11 411 19 HOH HOH . 
P 6 HOH C 12 412 61 HOH HOH . 
P 6 HOH C 13 413 25 HOH HOH . 
P 6 HOH C 14 414 11 HOH HOH . 
P 6 HOH C 15 415 127 HOH HOH . 
P 6 HOH C 16 416 66 HOH HOH . 
P 6 HOH C 17 417 96 HOH HOH . 
P 6 HOH C 18 418 141 HOH HOH . 
P 6 HOH C 19 419 42 HOH HOH . 
P 6 HOH C 20 420 28 HOH HOH . 
P 6 HOH C 21 421 41 HOH HOH . 
P 6 HOH C 22 422 39 HOH HOH . 
P 6 HOH C 23 423 70 HOH HOH . 
P 6 HOH C 24 424 103 HOH HOH . 
P 6 HOH C 25 425 6 HOH HOH . 
P 6 HOH C 26 426 75 HOH HOH . 
P 6 HOH C 27 427 77 HOH HOH . 
P 6 HOH C 28 428 97 HOH HOH . 
P 6 HOH C 29 429 144 HOH HOH . 
P 6 HOH C 30 430 142 HOH HOH . 
Q 6 HOH D 1 401 91 HOH HOH . 
Q 6 HOH D 2 402 120 HOH HOH . 
Q 6 HOH D 3 403 5 HOH HOH . 
Q 6 HOH D 4 404 93 HOH HOH . 
Q 6 HOH D 5 405 125 HOH HOH . 
Q 6 HOH D 6 406 29 HOH HOH . 
Q 6 HOH D 7 407 119 HOH HOH . 
Q 6 HOH D 8 408 79 HOH HOH . 
Q 6 HOH D 9 409 86 HOH HOH . 
Q 6 HOH D 10 410 110 HOH HOH . 
Q 6 HOH D 11 411 9 HOH HOH . 
Q 6 HOH D 12 412 74 HOH HOH . 
Q 6 HOH D 13 413 114 HOH HOH . 
Q 6 HOH D 14 414 111 HOH HOH . 
Q 6 HOH D 15 415 143 HOH HOH . 
Q 6 HOH D 16 416 43 HOH HOH . 
Q 6 HOH D 17 417 126 HOH HOH . 
Q 6 HOH D 18 418 132 HOH HOH . 
Q 6 HOH D 19 419 8 HOH HOH . 
Q 6 HOH D 20 420 13 HOH HOH . 
Q 6 HOH D 21 421 92 HOH HOH . 
Q 6 HOH D 22 422 76 HOH HOH . 
Q 6 HOH D 23 423 81 HOH HOH . 
Q 6 HOH D 24 424 107 HOH HOH . 
Q 6 HOH D 25 425 102 HOH HOH . 
Q 6 HOH D 26 426 113 HOH HOH . 
Q 6 HOH D 27 427 105 HOH HOH . 
Q 6 HOH D 28 428 58 HOH HOH . 
Q 6 HOH D 29 429 118 HOH HOH . 
Q 6 HOH D 30 430 95 HOH HOH . 
Q 6 HOH D 31 431 108 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 CIT . . . I 5 31.03 25.291 129.034 1 83.95 ? C1 CIT 303 B 1 
HETATM 2 O O1 CIT . . . I 5 30.476 24.945 127.966 1 74.49 ? O1 CIT 303 B 1 
HETATM 3 O O2 CIT . . . I 5 32.188 25.766 129 1 85.63 ? O2 CIT 303 B 1 
HETATM 4 C C2 CIT . . . I 5 30.347 25.104 130.371 1 90.33 ? C2 CIT 303 B 1 
HETATM 5 C C3 CIT . . . I 5 28.994 25.781 130.602 1 93.15 ? C3 CIT 303 B 1 
HETATM 6 O O7 CIT . . . I 5 28.206 25.617 129.393 1 93.95 ? O7 CIT 303 B 1 
HETATM 7 C C4 CIT . . . I 5 28.308 25.083 131.773 1 83.49 ? C4 CIT 303 B 1 
HETATM 8 C C5 CIT . . . I 5 26.812 25.115 131.594 1 82.46 ? C5 CIT 303 B 1 
HETATM 9 O O3 CIT . . . I 5 26.291 25.75 130.654 1 86.78 ? O3 CIT 303 B 1 
HETATM 10 O O4 CIT . . . I 5 26.071 24.506 132.389 1 82.62 ? O4 CIT 303 B 1 
HETATM 11 C C6 CIT . . . I 5 29.144 27.262 130.979 1 96.94 ? C6 CIT 303 B 1 
HETATM 12 O O5 CIT . . . I 5 29.486 28.134 130.142 1 92.84 ? O5 CIT 303 B 1 
HETATM 13 O O6 CIT . . . I 5 28.926 27.629 132.161 1 92.64 ? O6 CIT 303 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           13 
#