data_5KIC
#
_model_server_result.job_id            kp45MaNb7piqB57vJMWgqQ 
_model_server_result.datetime_utc      '2024-11-05 04:23:03' 
_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          5kic 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":202}' 
#
_entry.id    5KIC 
#
_exptl.entry_id    5KIC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              750.712 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "N,N'-butane-1,4-diylbis[1-hydroxy-N-(3-{[(1-hydroxy-6-oxo-1,6-dihydropyridin-2-yl)carbonyl]amino}propyl)-6-oxo-1,6-dihydropyridine-2-carboxamide]" 
_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            5KIC 
_cell.length_a            119.574 
_cell.length_b            119.574 
_cell.length_c            108.839 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KIC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,P 1 1 
B,G,H,I,Q 2 1 
C,J,K,L,M,N,O,R 3 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 H N N 
? 3 K 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 78 A CYS 76 1_555 A SG CYS 177 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
disulf ? disulf2 B SG CYS 78 B CYS 76 1_555 B SG CYS 177 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? 
disulf ? disulf3 C SG CYS 78 C CYS 76 1_555 C SG CYS 177 C CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
#
_chem_comp.formula           'C34 H38 N8 O12' 
_chem_comp.formula_weight    750.712 
_chem_comp.id                4OL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "N,N'-butane-1,4-diylbis[1-hydroxy-N-(3-{[(1-hydroxy-6-oxo-1,6-dihydropyridin-2-yl)carbonyl]amino}propyl)-6-oxo-1,6-dihydropyridine-2-carboxamide]" 
_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
O55 C28 4OL doub 1 n n 
C18 C17 4OL sing 2 n n 
C18 C19 4OL sing 3 n n 
C20 C19 4OL sing 4 n n 
C20 N21 4OL sing 5 n n 
C17 N15 4OL sing 6 n n 
C28 N21 4OL sing 7 n n 
C28 C34 4OL sing 8 n n 
N21 C29 4OL sing 9 n n 
C39 C34 4OL doub 10 n n 
C39 C38 4OL sing 11 n n 
N15 C14 4OL sing 12 n n 
N15 C16 4OL sing 13 n n 
C34 N35 4OL sing 14 n n 
C14 C13 4OL sing 15 n n 
C13 C12 4OL sing 16 n n 
C30 C29 4OL sing 17 n n 
C30 C31 4OL sing 18 n n 
O54 C16 4OL doub 19 n n 
C12 N9 4OL sing 20 n n 
C38 C37 4OL doub 21 n n 
C16 C22 4OL sing 22 n n 
N35 O46 4OL sing 23 n n 
N35 C36 4OL sing 24 n n 
C31 N32 4OL sing 25 n n 
N9 C1 4OL sing 26 n n 
C37 C36 4OL sing 27 n n 
C22 C23 4OL doub 28 n n 
C22 N27 4OL sing 29 n n 
C36 O47 4OL doub 30 n n 
C23 C24 4OL sing 31 n n 
O48 N27 4OL sing 32 n n 
N32 C33 4OL sing 33 n n 
C1 O8 4OL doub 34 n n 
C1 C2 4OL sing 35 n n 
N27 C26 4OL sing 36 n n 
O10 N3 4OL sing 37 n n 
O50 N45 4OL sing 38 n n 
C33 O53 4OL doub 39 n n 
C33 C40 4OL sing 40 n n 
C24 C25 4OL doub 41 n n 
C2 N3 4OL sing 42 n n 
C2 C7 4OL doub 43 n n 
N3 C4 4OL sing 44 n n 
C26 C25 4OL sing 45 n n 
C26 O49 4OL doub 46 n n 
N45 C40 4OL sing 47 n n 
N45 C44 4OL sing 48 n n 
C40 C41 4OL doub 49 n n 
C7 C6 4OL sing 50 n n 
C4 O9 4OL doub 51 n n 
C4 C5 4OL sing 52 n n 
O51 C44 4OL doub 53 n n 
C44 C43 4OL sing 54 n n 
C41 C42 4OL sing 55 n n 
C6 C5 4OL doub 56 n n 
C43 C42 4OL doub 57 n n 
C6 H1 4OL sing 58 n n 
C5 H2 4OL sing 59 n n 
C7 H3 4OL sing 60 n n 
C12 H4 4OL sing 61 n n 
C12 H5 4OL sing 62 n n 
C13 H6 4OL sing 63 n n 
C13 H7 4OL sing 64 n n 
C14 H8 4OL sing 65 n n 
C14 H9 4OL sing 66 n n 
C17 H10 4OL sing 67 n n 
C17 H11 4OL sing 68 n n 
C18 H12 4OL sing 69 n n 
C18 H13 4OL sing 70 n n 
C20 H14 4OL sing 71 n n 
C20 H15 4OL sing 72 n n 
C23 H16 4OL sing 73 n n 
C24 H17 4OL sing 74 n n 
C25 H18 4OL sing 75 n n 
C39 H19 4OL sing 76 n n 
C38 H20 4OL sing 77 n n 
C37 H21 4OL sing 78 n n 
O46 H22 4OL sing 79 n n 
C29 H23 4OL sing 80 n n 
C29 H24 4OL sing 81 n n 
C30 H25 4OL sing 82 n n 
C30 H26 4OL sing 83 n n 
C31 H27 4OL sing 84 n n 
C31 H28 4OL sing 85 n n 
N32 H29 4OL sing 86 n n 
O50 H30 4OL sing 87 n n 
C43 H31 4OL sing 88 n n 
C42 H32 4OL sing 89 n n 
C41 H33 4OL sing 90 n n 
C19 H34 4OL sing 91 n n 
C19 H35 4OL sing 92 n n 
O48 H36 4OL sing 93 n n 
N9 H37 4OL sing 94 n n 
O10 H38 4OL sing 95 n n 
#
_atom_sites.entry_id                     5KIC 
_atom_sites.fract_transf_matrix[1][1]    0.008363 
_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]    0.008363 
_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]    0.009188 
_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
D 2 CF A 1 201 300 CF CF . 
E 3 4OL A 1 202 301 4OL HOP . 
F 4 CL A 1 203 1 CL CL . 
G 2 CF B 1 201 300 CF CF . 
H 3 4OL B 1 202 301 4OL HOP . 
I 4 CL B 1 203 3 CL CL . 
J 2 CF C 1 201 300 CF CF . 
K 3 4OL C 1 202 301 4OL HOP . 
L 4 CL C 1 203 2 CL CL . 
M 5 SO4 C 1 204 1 SO4 SO4 . 
N 5 SO4 C 1 205 2 SO4 SO4 . 
O 5 SO4 C 1 206 3 SO4 SO4 . 
P 6 HOH A 1 301 8 HOH HOH . 
P 6 HOH A 2 302 15 HOH HOH . 
P 6 HOH A 3 303 7 HOH HOH . 
P 6 HOH A 4 304 13 HOH HOH . 
P 6 HOH A 5 305 21 HOH HOH . 
P 6 HOH A 6 306 24 HOH HOH . 
P 6 HOH A 7 307 16 HOH HOH . 
P 6 HOH A 8 308 32 HOH HOH . 
P 6 HOH A 9 309 38 HOH HOH . 
P 6 HOH A 10 310 41 HOH HOH . 
P 6 HOH A 11 311 4 HOH HOH . 
P 6 HOH A 12 312 17 HOH HOH . 
Q 6 HOH B 1 301 9 HOH HOH . 
Q 6 HOH B 2 302 31 HOH HOH . 
Q 6 HOH B 3 303 39 HOH HOH . 
Q 6 HOH B 4 304 10 HOH HOH . 
Q 6 HOH B 5 305 29 HOH HOH . 
Q 6 HOH B 6 306 40 HOH HOH . 
Q 6 HOH B 7 307 37 HOH HOH . 
Q 6 HOH B 8 308 27 HOH HOH . 
Q 6 HOH B 9 309 6 HOH HOH . 
Q 6 HOH B 10 310 3 HOH HOH . 
R 6 HOH C 1 301 26 HOH HOH . 
R 6 HOH C 2 302 20 HOH HOH . 
R 6 HOH C 3 303 30 HOH HOH . 
R 6 HOH C 4 304 34 HOH HOH . 
R 6 HOH C 5 305 14 HOH HOH . 
R 6 HOH C 6 306 43 HOH HOH . 
R 6 HOH C 7 307 19 HOH HOH . 
R 6 HOH C 8 308 35 HOH HOH . 
R 6 HOH C 9 309 36 HOH HOH . 
R 6 HOH C 10 310 28 HOH HOH . 
R 6 HOH C 11 311 11 HOH HOH . 
R 6 HOH C 12 312 42 HOH HOH . 
R 6 HOH C 13 313 33 HOH HOH . 
R 6 HOH C 14 314 23 HOH HOH . 
R 6 HOH C 15 315 25 HOH HOH . 
R 6 HOH C 16 316 12 HOH HOH . 
R 6 HOH C 17 317 18 HOH HOH . 
R 6 HOH C 18 318 22 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 4OL . . . H 3 58.974 105.854 42.184 1 92.7 ? C1 4OL 202 B 1 
HETATM 2 C C2 4OL . . . H 3 60.189 105.539 41.35 1 89.55 ? C2 4OL 202 B 1 
HETATM 3 C C6 4OL . . . H 3 62.407 104.596 41.117 1 80.03 ? C6 4OL 202 B 1 
HETATM 4 C C5 4OL . . . H 3 62.455 104.986 39.785 1 83.21 ? C5 4OL 202 B 1 
HETATM 5 C C4 4OL . . . H 3 61.391 105.654 39.208 1 80.87 ? C4 4OL 202 B 1 
HETATM 6 C C7 4OL . . . H 3 61.285 104.867 41.899 1 86.65 ? C7 4OL 202 B 1 
HETATM 7 C C12 4OL . . . H 3 56.523 106.223 42.364 1 109.51 ? C12 4OL 202 B 1 
HETATM 8 C C13 4OL . . . H 3 56.217 107.703 42.575 1 115.25 ? C13 4OL 202 B 1 
HETATM 9 C C14 4OL . . . H 3 55.972 108.391 41.231 1 120.76 ? C14 4OL 202 B 1 
HETATM 10 C C16 4OL . . . H 3 56.556 110.747 41.443 1 131.17 ? C16 4OL 202 B 1 
HETATM 11 C C17 4OL . . . H 3 54.194 110.122 41.669 1 114.88 ? C17 4OL 202 B 1 
HETATM 12 C C18 4OL . . . H 3 53.402 110.005 40.36 1 110.97 ? C18 4OL 202 B 1 
HETATM 13 C C20 4OL . . . H 3 52.899 111.082 38.07 1 109.68 ? C20 4OL 202 B 1 
HETATM 14 C C23 4OL . . . H 3 57.053 111.62 43.737 1 151.06 ? C23 4OL 202 B 1 
HETATM 15 C C24 4OL . . . H 3 57.875 111.74 44.864 1 150.88 ? C24 4OL 202 B 1 
HETATM 16 C C25 4OL . . . H 3 59.116 111.094 44.9 1 151.2 ? C25 4OL 202 B 1 
HETATM 17 C C26 4OL . . . H 3 59.541 110.321 43.81 1 143.73 ? C26 4OL 202 B 1 
HETATM 18 O O55 4OL . . . H 3 52.845 108.358 37.571 1 97.16 ? O55 4OL 202 B 1 
HETATM 19 C C28 4OL . . . H 3 53.738 109.003 37.033 1 104.17 ? C28 4OL 202 B 1 
HETATM 20 C C34 4OL . . . H 3 54.588 108.168 36.107 1 102.86 ? C34 4OL 202 B 1 
HETATM 21 C C39 4OL . . . H 3 53.99 107.599 34.984 1 101.55 ? C39 4OL 202 B 1 
HETATM 22 C C38 4OL . . . H 3 54.723 106.799 34.108 1 99.01 ? C38 4OL 202 B 1 
HETATM 23 C C37 4OL . . . H 3 56.067 106.537 34.329 1 93.67 ? C37 4OL 202 B 1 
HETATM 24 C C36 4OL . . . H 3 56.692 107.085 35.434 1 96.05 ? C36 4OL 202 B 1 
HETATM 25 O O47 4OL . . . H 3 57.898 106.819 35.589 1 90.05 ? O47 4OL 202 B 1 
HETATM 26 N N35 4OL . . . H 3 55.956 107.905 36.345 1 102.02 ? N35 4OL 202 B 1 
HETATM 27 O O46 4OL . . . H 3 56.573 108.468 37.507 1 113.98 ? O46 4OL 202 B 1 
HETATM 28 N N21 4OL . . . H 3 53.902 110.329 37.289 1 107.64 ? N21 4OL 202 B 1 
HETATM 29 C C29 4OL . . . H 3 55.052 111.153 36.88 1 103.35 ? C29 4OL 202 B 1 
HETATM 30 C C30 4OL . . . H 3 55.121 111.283 35.362 1 104.32 ? C30 4OL 202 B 1 
HETATM 31 C C31 4OL . . . H 3 56.1 112.386 34.964 1 106.99 ? C31 4OL 202 B 1 
HETATM 32 N N32 4OL . . . H 3 57.473 112.097 35.359 1 104.34 ? N32 4OL 202 B 1 
HETATM 33 C C33 4OL . . . H 3 58.491 112.938 35.137 1 103.9 ? C33 4OL 202 B 1 
HETATM 34 O O53 4OL . . . H 3 58.326 114.003 34.567 1 106.99 ? O53 4OL 202 B 1 
HETATM 35 C C40 4OL . . . H 3 59.891 112.564 35.565 1 107.81 ? C40 4OL 202 B 1 
HETATM 36 N N45 4OL . . . H 3 60.216 111.209 35.802 1 105.33 ? N45 4OL 202 B 1 
HETATM 37 O O50 4OL . . . H 3 59.186 110.228 35.646 1 109.92 ? O50 4OL 202 B 1 
HETATM 38 C C44 4OL . . . H 3 61.526 110.828 36.191 1 104.52 ? C44 4OL 202 B 1 
HETATM 39 O O51 4OL . . . H 3 61.809 109.632 36.396 1 91.86 ? O51 4OL 202 B 1 
HETATM 40 C C43 4OL . . . H 3 62.509 111.801 36.347 1 109.96 ? C43 4OL 202 B 1 
HETATM 41 C C42 4OL . . . H 3 62.191 113.143 36.113 1 116.14 ? C42 4OL 202 B 1 
HETATM 42 C C41 4OL . . . H 3 60.897 113.526 35.724 1 114.45 ? C41 4OL 202 B 1 
HETATM 43 C C19 4OL . . . H 3 53.403 111.282 39.513 1 111.1 ? C19 4OL 202 B 1 
HETATM 44 N N15 4OL . . . H 3 55.61 109.801 41.444 1 123.23 ? N15 4OL 202 B 1 
HETATM 45 O O54 4OL . . . H 3 56.719 111.521 40.511 1 126.45 ? O54 4OL 202 B 1 
HETATM 46 C C22 4OL . . . H 3 57.464 110.856 42.635 1 141.26 ? C22 4OL 202 B 1 
HETATM 47 N N27 4OL . . . H 3 58.725 110.189 42.663 1 138.29 ? N27 4OL 202 B 1 
HETATM 48 O O48 4OL . . . H 3 59.202 109.382 41.57 1 114.05 ? O48 4OL 202 B 1 
HETATM 49 O O49 4OL . . . H 3 60.645 109.743 43.838 1 140.19 ? O49 4OL 202 B 1 
HETATM 50 N N9 4OL . . . H 3 57.76 105.98 41.624 1 102.53 ? N9 4OL 202 B 1 
HETATM 51 O O8 4OL . . . H 3 59.156 106 43.375 1 97.33 ? O8 4OL 202 B 1 
HETATM 52 N N3 4OL . . . H 3 60.248 105.931 39.997 1 87.08 ? N3 4OL 202 B 1 
HETATM 53 O O9 4OL . . . H 3 61.476 105.979 38 1 75.67 ? O9 4OL 202 B 1 
HETATM 54 O O10 4OL . . . H 3 59.122 106.616 39.438 1 110.78 ? O10 4OL 202 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           335 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           54 
#