data_5ZK7
#
_model_server_result.job_id            McmoxsdPol8PFlu8FotTwQ 
_model_server_result.datetime_utc      '2024-11-19 14:38:38' 
_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          5zk7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1004}' 
#
_entry.id    5ZK7 
#
_exptl.entry_id    5ZK7 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            5ZK7 
_cell.length_a            57.35 
_cell.length_b            68.17 
_cell.length_c            111.01 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5ZK7 
_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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,G,H,I,L,M,N,Q 1 1 
B,C,J,K,O,P 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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             H 
_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
covale ? covale1 C C ACE 1 C ACE 0 1_555 C N ARG 2 C ARG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.351 ? 
covale ? covale2 C C ARG 5 C ARG 4 1_555 C N MK8 6 C MK8 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale3 C C MK8 6 C MK8 5 1_555 C N GLN 7 C GLN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.277 ? 
covale ? covale4 C C LEU 9 C LEU 8 1_555 C N MK8 10 C MK8 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale5 C C MK8 10 C MK8 9 1_555 C N LEU 11 C LEU 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.288 ? 
covale ? covale6 C C ARG 13 C ARG 12 1_555 C N NH2 14 C NH2 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? 
covale ? covale7 D C ACE 1 D ACE 0 1_555 D N ARG 2 D ARG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.364 ? 
covale ? covale8 D C ARG 5 D ARG 4 1_555 D N MK8 6 D MK8 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.357 ? 
covale ? covale9 D C MK8 6 D MK8 5 1_555 D N GLN 7 D GLN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.279 ? 
covale ? covale10 D C LEU 9 D LEU 8 1_555 D N MK8 10 D MK8 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
covale ? covale11 D C MK8 10 D MK8 9 1_555 D N LEU 11 D LEU 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.273 ? 
covale ? covale12 D C ARG 13 D ARG 12 1_555 D N NH2 14 D NH2 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.4 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 GOL sing 135 n n 
C1 C2 GOL sing 136 n n 
C1 H11 GOL sing 137 n n 
C1 H12 GOL sing 138 n n 
O1 HO1 GOL sing 139 n n 
C2 O2 GOL sing 140 n n 
C2 C3 GOL sing 141 n n 
C2 H2 GOL sing 142 n n 
O2 HO2 GOL sing 143 n n 
C3 O3 GOL sing 144 n n 
C3 H31 GOL sing 145 n n 
C3 H32 GOL sing 146 n n 
O3 HO3 GOL sing 147 n n 
#
_atom_sites.entry_id                     5ZK7 
_atom_sites.fract_transf_matrix[1][1]    0.017437 
_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]    0.014669 
_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]    0.009008 
_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 MGT A 1 1001 1001 MGT MGT . 
F 4 IOD A 1 1002 2 IOD IOD . 
G 4 IOD A 1 1003 3 IOD IOD . 
H 5 GOL A 1 1004 1 GOL GOL . 
I 6 CL A 1 1005 6 CL CL . 
J 3 MGT B 1 1001 1001 MGT MGT . 
K 4 IOD C 1 101 4 IOD IOD . 
L 4 IOD D 1 101 1 IOD IOD . 
M 4 IOD D 1 102 5 IOD IOD . 
N 7 HOH A 1 1101 131 HOH HOH . 
N 7 HOH A 2 1102 153 HOH HOH . 
N 7 HOH A 3 1103 43 HOH HOH . 
N 7 HOH A 4 1104 34 HOH HOH . 
N 7 HOH A 5 1105 25 HOH HOH . 
N 7 HOH A 6 1106 101 HOH HOH . 
N 7 HOH A 7 1107 105 HOH HOH . 
N 7 HOH A 8 1108 79 HOH HOH . 
N 7 HOH A 9 1109 83 HOH HOH . 
N 7 HOH A 10 1110 2 HOH HOH . 
N 7 HOH A 11 1111 77 HOH HOH . 
N 7 HOH A 12 1112 108 HOH HOH . 
N 7 HOH A 13 1113 71 HOH HOH . 
N 7 HOH A 14 1114 3 HOH HOH . 
N 7 HOH A 15 1115 47 HOH HOH . 
N 7 HOH A 16 1116 60 HOH HOH . 
N 7 HOH A 17 1117 82 HOH HOH . 
N 7 HOH A 18 1118 50 HOH HOH . 
N 7 HOH A 19 1119 141 HOH HOH . 
N 7 HOH A 20 1120 51 HOH HOH . 
N 7 HOH A 21 1121 150 HOH HOH . 
N 7 HOH A 22 1122 48 HOH HOH . 
N 7 HOH A 23 1123 35 HOH HOH . 
N 7 HOH A 24 1124 132 HOH HOH . 
N 7 HOH A 25 1125 4 HOH HOH . 
N 7 HOH A 26 1126 129 HOH HOH . 
N 7 HOH A 27 1127 10 HOH HOH . 
N 7 HOH A 28 1128 143 HOH HOH . 
N 7 HOH A 29 1129 32 HOH HOH . 
N 7 HOH A 30 1130 81 HOH HOH . 
N 7 HOH A 31 1131 54 HOH HOH . 
N 7 HOH A 32 1132 70 HOH HOH . 
N 7 HOH A 33 1133 17 HOH HOH . 
N 7 HOH A 34 1134 49 HOH HOH . 
N 7 HOH A 35 1135 9 HOH HOH . 
N 7 HOH A 36 1136 106 HOH HOH . 
N 7 HOH A 37 1137 80 HOH HOH . 
N 7 HOH A 38 1138 100 HOH HOH . 
N 7 HOH A 39 1139 151 HOH HOH . 
N 7 HOH A 40 1140 6 HOH HOH . 
N 7 HOH A 41 1141 128 HOH HOH . 
N 7 HOH A 42 1142 107 HOH HOH . 
N 7 HOH A 43 1143 57 HOH HOH . 
N 7 HOH A 44 1144 40 HOH HOH . 
N 7 HOH A 45 1145 104 HOH HOH . 
N 7 HOH A 46 1146 73 HOH HOH . 
N 7 HOH A 47 1147 78 HOH HOH . 
N 7 HOH A 48 1148 46 HOH HOH . 
N 7 HOH A 49 1149 5 HOH HOH . 
N 7 HOH A 50 1150 126 HOH HOH . 
N 7 HOH A 51 1151 68 HOH HOH . 
N 7 HOH A 52 1152 45 HOH HOH . 
N 7 HOH A 53 1153 27 HOH HOH . 
N 7 HOH A 54 1154 52 HOH HOH . 
N 7 HOH A 55 1155 84 HOH HOH . 
N 7 HOH A 56 1156 41 HOH HOH . 
N 7 HOH A 57 1157 152 HOH HOH . 
N 7 HOH A 58 1158 44 HOH HOH . 
N 7 HOH A 59 1159 134 HOH HOH . 
O 7 HOH B 1 1101 111 HOH HOH . 
O 7 HOH B 2 1102 113 HOH HOH . 
O 7 HOH B 3 1103 116 HOH HOH . 
O 7 HOH B 4 1104 94 HOH HOH . 
O 7 HOH B 5 1105 97 HOH HOH . 
O 7 HOH B 6 1106 91 HOH HOH . 
O 7 HOH B 7 1107 31 HOH HOH . 
O 7 HOH B 8 1108 95 HOH HOH . 
O 7 HOH B 9 1109 37 HOH HOH . 
O 7 HOH B 10 1110 123 HOH HOH . 
O 7 HOH B 11 1111 74 HOH HOH . 
O 7 HOH B 12 1112 85 HOH HOH . 
O 7 HOH B 13 1113 98 HOH HOH . 
O 7 HOH B 14 1114 56 HOH HOH . 
O 7 HOH B 15 1115 114 HOH HOH . 
O 7 HOH B 16 1116 23 HOH HOH . 
O 7 HOH B 17 1117 62 HOH HOH . 
O 7 HOH B 18 1118 92 HOH HOH . 
O 7 HOH B 19 1119 99 HOH HOH . 
O 7 HOH B 20 1120 90 HOH HOH . 
O 7 HOH B 21 1121 12 HOH HOH . 
O 7 HOH B 22 1122 11 HOH HOH . 
O 7 HOH B 23 1123 7 HOH HOH . 
O 7 HOH B 24 1124 8 HOH HOH . 
O 7 HOH B 25 1125 75 HOH HOH . 
O 7 HOH B 26 1126 89 HOH HOH . 
O 7 HOH B 27 1127 76 HOH HOH . 
O 7 HOH B 28 1128 118 HOH HOH . 
O 7 HOH B 29 1129 96 HOH HOH . 
O 7 HOH B 30 1130 140 HOH HOH . 
O 7 HOH B 31 1131 72 HOH HOH . 
O 7 HOH B 32 1132 109 HOH HOH . 
O 7 HOH B 33 1133 13 HOH HOH . 
O 7 HOH B 34 1134 139 HOH HOH . 
O 7 HOH B 35 1135 63 HOH HOH . 
O 7 HOH B 36 1136 148 HOH HOH . 
O 7 HOH B 37 1137 154 HOH HOH . 
O 7 HOH B 38 1138 155 HOH HOH . 
O 7 HOH B 39 1139 61 HOH HOH . 
O 7 HOH B 40 1140 124 HOH HOH . 
O 7 HOH B 41 1141 125 HOH HOH . 
O 7 HOH B 42 1142 38 HOH HOH . 
O 7 HOH B 43 1143 29 HOH HOH . 
O 7 HOH B 44 1144 53 HOH HOH . 
O 7 HOH B 45 1145 112 HOH HOH . 
O 7 HOH B 46 1146 138 HOH HOH . 
O 7 HOH B 47 1147 110 HOH HOH . 
O 7 HOH B 48 1148 30 HOH HOH . 
O 7 HOH B 49 1149 93 HOH HOH . 
O 7 HOH B 50 1150 36 HOH HOH . 
O 7 HOH B 51 1151 42 HOH HOH . 
O 7 HOH B 52 1152 69 HOH HOH . 
O 7 HOH B 53 1153 28 HOH HOH . 
P 7 HOH C 1 201 119 HOH HOH . 
P 7 HOH C 2 202 144 HOH HOH . 
P 7 HOH C 3 203 1 HOH HOH . 
P 7 HOH C 4 204 24 HOH HOH . 
P 7 HOH C 5 205 146 HOH HOH . 
P 7 HOH C 6 206 58 HOH HOH . 
P 7 HOH C 7 207 14 HOH HOH . 
P 7 HOH C 8 208 142 HOH HOH . 
Q 7 HOH D 1 201 16 HOH HOH . 
Q 7 HOH D 2 202 66 HOH HOH . 
Q 7 HOH D 3 203 26 HOH HOH . 
Q 7 HOH D 4 204 39 HOH HOH . 
Q 7 HOH D 5 205 127 HOH HOH . 
Q 7 HOH D 6 206 147 HOH HOH . 
Q 7 HOH D 7 207 59 HOH HOH . 
Q 7 HOH D 8 208 33 HOH HOH . 
Q 7 HOH D 9 209 130 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 GOL . . . H 5 -24.1 2.26 -14.145 1 36.16 ? C1 GOL 1004 A 1 
HETATM 2 O O1 GOL . . . H 5 -23.24 1.923 -15.244 1 39.31 ? O1 GOL 1004 A 1 
HETATM 3 C C2 GOL . . . H 5 -23.309 3.135 -13.195 1 34.97 ? C2 GOL 1004 A 1 
HETATM 4 O O2 GOL . . . H 5 -23.31 4.479 -13.721 1 35.01 ? O2 GOL 1004 A 1 
HETATM 5 C C3 GOL . . . H 5 -23.871 3.086 -11.764 1 33.89 ? C3 GOL 1004 A 1 
HETATM 6 O O3 GOL . . . H 5 -23.799 4.37 -11.113 1 32.7 ? O3 GOL 1004 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           6 
#