data_3D5O
#
_model_server_result.job_id            qV7BF71U4Qjd9ZIfV1dMQw 
_model_server_result.datetime_utc      '2024-11-14 17:19:20' 
_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          3d5o 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"BA","auth_seq_id":179}' 
#
_entry.id    3D5O 
#
_exptl.entry_id    3D5O 
_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            3D5O 
_cell.length_a            64.197 
_cell.length_b            143.477 
_cell.length_c            161.588 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3D5O 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
F,AA,BA,HA 1 1 
D,S,T,U,V,FA 1 2 
A,B,C,E,G,H,I,J,K,L,M,N,O,P,Q,R,W,X,Y,Z,CA,DA,EA,GA 1 3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'crystal symmetry operation' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -64.197 0 0 
2 'crystal symmetry operation' 3_554 -x,y+1/2,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 71.7385 -80.794 
3 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             BA 
_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
disulf ? disulf1 A SG CYS 36 A CYS 36 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf2 B SG CYS 36 B CYS 36 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf3 C SG CYS 36 C CYS 36 1_555 C SG CYS 95 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 D SG CYS 36 D CYS 36 1_555 D SG CYS 95 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf5 E SG CYS 36 E CYS 36 1_555 E SG CYS 95 E CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf6 F SG CYS 26 F CYS 26 1_555 F SG CYS 68 F CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf7 F SG CYS 107 F CYS 107 1_555 F SG CYS 151 F CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
covale ? covale1 A ND2 ASN 32 A ASN 32 1_555 J C1 NAG . A NAG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? 
covale ? covale2 B ND2 ASN 32 B ASN 32 1_555 N C1 NAG . B NAG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale3 C ND2 ASN 32 C ASN 32 1_555 R C1 NAG . C NAG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
covale ? covale4 D ND2 ASN 32 D ASN 32 1_555 V C1 NAG . D NAG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? 
covale ? covale5 E ND2 ASN 32 E ASN 32 1_555 Z C1 NAG . E NAG 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? 
#
_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 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     3D5O 
_atom_sites.fract_transf_matrix[1][1]    0.015577 
_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]    0.00697 
_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]    0.006189 
_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
G 3 SO4 A 1 205 1 SO4 SO4 . 
H 3 SO4 A 1 206 2 SO4 SO4 . 
I 3 SO4 A 1 207 3 SO4 SO4 . 
J 4 NAG A 1 208 1 NAG NAG . 
K 3 SO4 B 1 205 4 SO4 SO4 . 
L 3 SO4 B 1 206 5 SO4 SO4 . 
M 3 SO4 B 1 207 6 SO4 SO4 . 
N 4 NAG B 1 208 2 NAG NAG . 
O 3 SO4 C 1 205 7 SO4 SO4 . 
P 3 SO4 C 1 206 8 SO4 SO4 . 
Q 3 SO4 C 1 207 9 SO4 SO4 . 
R 4 NAG C 1 208 3 NAG NAG . 
S 3 SO4 D 1 205 10 SO4 SO4 . 
T 3 SO4 D 1 206 11 SO4 SO4 . 
U 3 SO4 D 1 207 12 SO4 SO4 . 
V 4 NAG D 1 208 4 NAG NAG . 
W 3 SO4 E 1 205 13 SO4 SO4 . 
X 3 SO4 E 1 206 14 SO4 SO4 . 
Y 3 SO4 E 1 207 15 SO4 SO4 . 
Z 4 NAG E 1 208 5 NAG NAG . 
AA 3 SO4 F 1 178 16 SO4 SO4 . 
BA 5 GOL F 1 179 1 GOL GOL . 
CA 6 HOH A 1 209 6 HOH HOH . 
CA 6 HOH A 2 210 13 HOH HOH . 
CA 6 HOH A 3 211 35 HOH HOH . 
DA 6 HOH B 1 209 7 HOH HOH . 
DA 6 HOH B 2 210 8 HOH HOH . 
DA 6 HOH B 3 211 10 HOH HOH . 
DA 6 HOH B 4 212 15 HOH HOH . 
DA 6 HOH B 5 213 16 HOH HOH . 
DA 6 HOH B 6 214 17 HOH HOH . 
DA 6 HOH B 7 215 20 HOH HOH . 
DA 6 HOH B 8 216 21 HOH HOH . 
DA 6 HOH B 9 217 22 HOH HOH . 
DA 6 HOH B 10 218 24 HOH HOH . 
DA 6 HOH B 11 219 27 HOH HOH . 
DA 6 HOH B 12 220 28 HOH HOH . 
DA 6 HOH B 13 221 36 HOH HOH . 
EA 6 HOH C 1 209 9 HOH HOH . 
EA 6 HOH C 2 210 11 HOH HOH . 
EA 6 HOH C 3 211 19 HOH HOH . 
EA 6 HOH C 4 212 23 HOH HOH . 
EA 6 HOH C 5 213 25 HOH HOH . 
EA 6 HOH C 6 214 32 HOH HOH . 
FA 6 HOH D 1 209 30 HOH HOH . 
FA 6 HOH D 2 210 31 HOH HOH . 
FA 6 HOH D 3 211 33 HOH HOH . 
GA 6 HOH E 1 209 12 HOH HOH . 
HA 6 HOH F 1 180 14 HOH HOH . 
HA 6 HOH F 2 181 18 HOH HOH . 
HA 6 HOH F 3 182 26 HOH HOH . 
HA 6 HOH F 4 183 29 HOH HOH . 
HA 6 HOH F 5 184 34 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 . . . BA 5 2.484 -15.454 -15.235 1 66.2 ? C1 GOL 179 F 1 
HETATM 2 O O1 GOL . . . BA 5 3.54 -14.491 -15.157 1 48.44 ? O1 GOL 179 F 1 
HETATM 3 C C2 GOL . . . BA 5 3.032 -16.852 -14.939 1 63.01 ? C2 GOL 179 F 1 
HETATM 4 O O2 GOL . . . BA 5 3.635 -16.892 -13.644 1 66.93 ? O2 GOL 179 F 1 
HETATM 5 C C3 GOL . . . BA 5 1.906 -17.876 -15.013 1 69.31 ? C3 GOL 179 F 1 
HETATM 6 O O3 GOL . . . BA 5 2.433 -19.171 -14.716 1 63.81 ? O3 GOL 179 F 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           6 
#