data_5VOP
#
_model_server_result.job_id            c6WkTZa81q9cv9nN8AqDOw 
_model_server_result.datetime_utc      '2024-10-10 02:32:36' 
_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          5vop 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":3003}' 
#
_entry.id    5VOP 
#
_exptl.entry_id    5VOP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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         120 
_cell.entry_id            5VOP 
_cell.length_a            111.482 
_cell.length_b            111.482 
_cell.length_c            242.679 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VOP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61 2 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
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,G,H,K 1 1 
B,I,J,L 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 D N N 
? 3 E N N 
? 3 H 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
metalc ? metalc1 A OD1 ASN 24 A ASN 376 1_555 G NA NA . A NA 3005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? 
metalc ? metalc2 A OG1 THR 26 A THR 378 1_555 G NA NA . A NA 3005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc3 A OG SER 61 A SER 413 1_555 G NA NA . A NA 3005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? 
metalc ? metalc4 G NA NA . A NA 3005 1_555 K O HOH . A HOH 3118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc5 G NA NA . A NA 3005 1_555 K O HOH . A HOH 3163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? 
metalc ? metalc6 B OD1 ASN 24 B ASN 376 1_555 J NA NA . B NA 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.059 ? 
metalc ? metalc7 B OG1 THR 26 B THR 378 1_555 J NA NA . B NA 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc8 B OG SER 61 B SER 413 1_555 J NA NA . B NA 3002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? 
metalc ? metalc9 J NA NA . B NA 3002 1_555 L O HOH . B HOH 3127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
#
_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 193 n n 
C1 C2 GOL sing 194 n n 
C1 H11 GOL sing 195 n n 
C1 H12 GOL sing 196 n n 
O1 HO1 GOL sing 197 n n 
C2 O2 GOL sing 198 n n 
C2 C3 GOL sing 199 n n 
C2 H2 GOL sing 200 n n 
O2 HO2 GOL sing 201 n n 
C3 O3 GOL sing 202 n n 
C3 H31 GOL sing 203 n n 
C3 H32 GOL sing 204 n n 
O3 HO3 GOL sing 205 n n 
#
_atom_sites.entry_id                     5VOP 
_atom_sites.fract_transf_matrix[1][1]    0.00897 
_atom_sites.fract_transf_matrix[1][2]    0.005179 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010358 
_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]    0.004121 
_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
C 2 C2F A 1 3001 3001 C2F C2F . 
D 3 GOL A 1 3002 3002 GOL GOL . 
E 3 GOL A 1 3003 3003 GOL GOL . 
F 4 FLC A 1 3004 3004 FLC FLC . 
G 5 NA A 1 3005 3005 NA NA . 
H 3 GOL A 1 3006 3002 GOL GOL . 
I 2 C2F B 1 3001 3001 C2F C2F . 
J 5 NA B 1 3002 3005 NA NA . 
K 6 HOH A 1 3101 89 HOH HOH . 
K 6 HOH A 2 3102 71 HOH HOH . 
K 6 HOH A 3 3103 100 HOH HOH . 
K 6 HOH A 4 3104 67 HOH HOH . 
K 6 HOH A 5 3105 44 HOH HOH . 
K 6 HOH A 6 3106 117 HOH HOH . 
K 6 HOH A 7 3107 64 HOH HOH . 
K 6 HOH A 8 3108 140 HOH HOH . 
K 6 HOH A 9 3109 34 HOH HOH . 
K 6 HOH A 10 3110 10 HOH HOH . 
K 6 HOH A 11 3111 29 HOH HOH . 
K 6 HOH A 12 3112 45 HOH HOH . 
K 6 HOH A 13 3113 114 HOH HOH . 
K 6 HOH A 14 3114 102 HOH HOH . 
K 6 HOH A 15 3115 58 HOH HOH . 
K 6 HOH A 16 3116 42 HOH HOH . 
K 6 HOH A 17 3117 55 HOH HOH . 
K 6 HOH A 18 3118 9 HOH HOH . 
K 6 HOH A 19 3119 47 HOH HOH . 
K 6 HOH A 20 3120 122 HOH HOH . 
K 6 HOH A 21 3121 126 HOH HOH . 
K 6 HOH A 22 3122 113 HOH HOH . 
K 6 HOH A 23 3123 95 HOH HOH . 
K 6 HOH A 24 3124 61 HOH HOH . 
K 6 HOH A 25 3125 69 HOH HOH . 
K 6 HOH A 26 3126 30 HOH HOH . 
K 6 HOH A 27 3127 27 HOH HOH . 
K 6 HOH A 28 3128 32 HOH HOH . 
K 6 HOH A 29 3129 81 HOH HOH . 
K 6 HOH A 30 3130 109 HOH HOH . 
K 6 HOH A 31 3131 20 HOH HOH . 
K 6 HOH A 32 3132 23 HOH HOH . 
K 6 HOH A 33 3133 25 HOH HOH . 
K 6 HOH A 34 3134 107 HOH HOH . 
K 6 HOH A 35 3135 33 HOH HOH . 
K 6 HOH A 36 3136 41 HOH HOH . 
K 6 HOH A 37 3137 17 HOH HOH . 
K 6 HOH A 38 3138 87 HOH HOH . 
K 6 HOH A 39 3139 13 HOH HOH . 
K 6 HOH A 40 3140 3 HOH HOH . 
K 6 HOH A 41 3141 1 HOH HOH . 
K 6 HOH A 42 3142 28 HOH HOH . 
K 6 HOH A 43 3143 12 HOH HOH . 
K 6 HOH A 44 3144 70 HOH HOH . 
K 6 HOH A 45 3145 6 HOH HOH . 
K 6 HOH A 46 3146 93 HOH HOH . 
K 6 HOH A 47 3147 11 HOH HOH . 
K 6 HOH A 48 3148 56 HOH HOH . 
K 6 HOH A 49 3149 86 HOH HOH . 
K 6 HOH A 50 3150 116 HOH HOH . 
K 6 HOH A 51 3151 80 HOH HOH . 
K 6 HOH A 52 3152 51 HOH HOH . 
K 6 HOH A 53 3153 53 HOH HOH . 
K 6 HOH A 54 3154 14 HOH HOH . 
K 6 HOH A 55 3155 24 HOH HOH . 
K 6 HOH A 56 3156 110 HOH HOH . 
K 6 HOH A 57 3157 131 HOH HOH . 
K 6 HOH A 58 3158 128 HOH HOH . 
K 6 HOH A 59 3159 75 HOH HOH . 
K 6 HOH A 60 3160 94 HOH HOH . 
K 6 HOH A 61 3161 121 HOH HOH . 
K 6 HOH A 62 3162 57 HOH HOH . 
K 6 HOH A 63 3163 21 HOH HOH . 
K 6 HOH A 64 3164 106 HOH HOH . 
K 6 HOH A 65 3165 26 HOH HOH . 
K 6 HOH A 66 3166 92 HOH HOH . 
K 6 HOH A 67 3167 50 HOH HOH . 
K 6 HOH A 68 3168 112 HOH HOH . 
K 6 HOH A 69 3169 36 HOH HOH . 
K 6 HOH A 70 3170 99 HOH HOH . 
K 6 HOH A 71 3171 90 HOH HOH . 
K 6 HOH A 72 3172 136 HOH HOH . 
K 6 HOH A 73 3173 118 HOH HOH . 
K 6 HOH A 74 3174 108 HOH HOH . 
K 6 HOH A 75 3175 111 HOH HOH . 
K 6 HOH A 76 3176 105 HOH HOH . 
K 6 HOH A 77 3177 120 HOH HOH . 
K 6 HOH A 78 3178 60 HOH HOH . 
K 6 HOH A 79 3179 119 HOH HOH . 
K 6 HOH A 80 3180 59 HOH HOH . 
K 6 HOH A 81 3181 115 HOH HOH . 
L 6 HOH B 1 3101 15 HOH HOH . 
L 6 HOH B 2 3102 54 HOH HOH . 
L 6 HOH B 3 3103 98 HOH HOH . 
L 6 HOH B 4 3104 31 HOH HOH . 
L 6 HOH B 5 3105 63 HOH HOH . 
L 6 HOH B 6 3106 72 HOH HOH . 
L 6 HOH B 7 3107 52 HOH HOH . 
L 6 HOH B 8 3108 78 HOH HOH . 
L 6 HOH B 9 3109 79 HOH HOH . 
L 6 HOH B 10 3110 135 HOH HOH . 
L 6 HOH B 11 3111 104 HOH HOH . 
L 6 HOH B 12 3112 19 HOH HOH . 
L 6 HOH B 13 3113 96 HOH HOH . 
L 6 HOH B 14 3114 18 HOH HOH . 
L 6 HOH B 15 3115 127 HOH HOH . 
L 6 HOH B 16 3116 62 HOH HOH . 
L 6 HOH B 17 3117 48 HOH HOH . 
L 6 HOH B 18 3118 7 HOH HOH . 
L 6 HOH B 19 3119 88 HOH HOH . 
L 6 HOH B 20 3120 2 HOH HOH . 
L 6 HOH B 21 3121 130 HOH HOH . 
L 6 HOH B 22 3122 35 HOH HOH . 
L 6 HOH B 23 3123 43 HOH HOH . 
L 6 HOH B 24 3124 83 HOH HOH . 
L 6 HOH B 25 3125 101 HOH HOH . 
L 6 HOH B 26 3126 82 HOH HOH . 
L 6 HOH B 27 3127 49 HOH HOH . 
L 6 HOH B 28 3128 16 HOH HOH . 
L 6 HOH B 29 3129 129 HOH HOH . 
L 6 HOH B 30 3130 68 HOH HOH . 
L 6 HOH B 31 3131 103 HOH HOH . 
L 6 HOH B 32 3132 91 HOH HOH . 
L 6 HOH B 33 3133 22 HOH HOH . 
L 6 HOH B 34 3134 125 HOH HOH . 
L 6 HOH B 35 3135 84 HOH HOH . 
L 6 HOH B 36 3136 97 HOH HOH . 
L 6 HOH B 37 3137 37 HOH HOH . 
L 6 HOH B 38 3138 46 HOH HOH . 
L 6 HOH B 39 3139 39 HOH HOH . 
L 6 HOH B 40 3140 138 HOH HOH . 
L 6 HOH B 41 3141 133 HOH HOH . 
L 6 HOH B 42 3142 134 HOH HOH . 
L 6 HOH B 43 3143 76 HOH HOH . 
L 6 HOH B 44 3144 137 HOH HOH . 
L 6 HOH B 45 3145 65 HOH HOH . 
L 6 HOH B 46 3146 124 HOH HOH . 
L 6 HOH B 47 3147 66 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 . . . E 3 -65.324 38.235 -4.397 1 60.87 ? C1 GOL 3003 A 1 
HETATM 2 O O1 GOL . . . E 3 -65.658 36.86 -4.292 1 57.68 ? O1 GOL 3003 A 1 
HETATM 3 C C2 GOL . . . E 3 -63.975 38.52 -3.792 1 62.47 ? C2 GOL 3003 A 1 
HETATM 4 O O2 GOL . . . E 3 -63.045 37.64 -4.41 1 54.29 ? O2 GOL 3003 A 1 
HETATM 5 C C3 GOL . . . E 3 -64.009 38.322 -2.267 1 65.62 ? C3 GOL 3003 A 1 
HETATM 6 O O3 GOL . . . E 3 -65.176 37.651 -1.841 1 64.34 ? O3 GOL 3003 A 1 
HETATM 7 H H11 GOL . . . E 3 -66 38.769 -3.951 1 60.87 ? H11 GOL 3003 A 1 
HETATM 8 H H12 GOL . . . E 3 -65.324 38.499 -5.33 1 60.87 ? H12 GOL 3003 A 1 
HETATM 9 H HO1 GOL . . . E 3 -66.473 36.783 -4.104 1 57.68 ? HO1 GOL 3003 A 1 
HETATM 10 H H2 GOL . . . E 3 -63.715 39.442 -3.944 1 62.47 ? H2 GOL 3003 A 1 
HETATM 11 H HO2 GOL . . . E 3 -62.279 37.775 -4.094 1 54.29 ? HO2 GOL 3003 A 1 
HETATM 12 H H31 GOL . . . E 3 -63.957 39.186 -1.829 1 65.62 ? H31 GOL 3003 A 1 
HETATM 13 H H32 GOL . . . E 3 -63.228 37.817 -1.991 1 65.62 ? H32 GOL 3003 A 1 
HETATM 14 H HO3 GOL . . . E 3 -65.325 36.998 -2.348 1 64.34 ? HO3 GOL 3003 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           14 
#