data_7KPB
#
_model_server_result.job_id            fX45ARE-42MuCzlDhWOH1A 
_model_server_result.datetime_utc      '2024-11-16 10:48:10' 
_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          7kpb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":202}' 
#
_entry.id    7KPB 
#
_exptl.entry_id    7KPB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  nat 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    9 
_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            7KPB 
_cell.length_a            99.51 
_cell.length_b            99.51 
_cell.length_c            311.35 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KPB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_pdbx_struct_assembly.details               author_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,R,S,T,U,V,W,X 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 H N N 
? 5 I N N 
? 5 J N N 
? 5 L N N 
? 5 M N N 
? 5 N N N 
? 5 P N N 
? 5 Q N N 
? 5 R 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 70 A CYS 69 1_555 A SG CYS 102 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf2 B SG CYS 70 B CYS 69 1_555 B SG CYS 102 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf3 C SG CYS 70 C CYS 69 1_555 C SG CYS 102 C CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf4 D SG CYS 4 F CYS 15 1_555 D SG CYS 18 F CYS 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf5 D SG CYS 19 F CYS 30 1_555 D SG CYS 32 F CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf6 D SG CYS 22 F CYS 33 1_555 D SG CYS 41 F CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf7 D SG CYS 44 F CYS 55 1_555 D SG CYS 59 F CYS 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf8 D SG CYS 62 F CYS 73 1_555 D SG CYS 77 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf9 D SG CYS 65 F CYS 76 1_555 D SG CYS 85 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf10 D SG CYS 87 F CYS 98 1_555 D SG CYS 103 F CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf11 D SG CYS 106 F CYS 117 1_555 D SG CYS 118 F CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf12 D SG CYS 109 F CYS 120 1_555 D SG CYS 126 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf13 D SG CYS 128 F CYS 139 1_555 D SG CYS 139 F CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf14 E SG CYS 4 E CYS 15 1_555 E SG CYS 18 E CYS 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf15 E SG CYS 19 E CYS 30 1_555 E SG CYS 32 E CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf16 E SG CYS 22 E CYS 33 1_555 E SG CYS 41 E CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf17 E SG CYS 44 E CYS 55 1_555 E SG CYS 59 E CYS 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf18 E SG CYS 62 E CYS 73 1_555 E SG CYS 77 E CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf19 E SG CYS 65 E CYS 76 1_555 E SG CYS 85 E CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf20 E SG CYS 87 E CYS 98 1_555 E SG CYS 103 E CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf21 E SG CYS 106 E CYS 117 1_555 E SG CYS 118 E CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf22 E SG CYS 109 E CYS 120 1_555 E SG CYS 126 E CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf23 E SG CYS 128 E CYS 139 1_555 E SG CYS 139 E CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf24 F SG CYS 23 L CYS 23 1_555 F SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf25 F SG CYS 134 L CYS 134 1_555 F SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf26 G SG CYS 22 H CYS 22 1_555 G SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf27 G SG CYS 148 H CYS 148 1_555 G SG CYS 203 H CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
covale ? covale1 E ND2 ASN 111 E ASN 122 1_555 O C1 NAG . E NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
#
_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 201 n n 
C1 C2 GOL sing 202 n n 
C1 H11 GOL sing 203 n n 
C1 H12 GOL sing 204 n n 
O1 HO1 GOL sing 205 n n 
C2 O2 GOL sing 206 n n 
C2 C3 GOL sing 207 n n 
C2 H2 GOL sing 208 n n 
O2 HO2 GOL sing 209 n n 
C3 O3 GOL sing 210 n n 
C3 H31 GOL sing 211 n n 
C3 H32 GOL sing 212 n n 
O3 HO3 GOL sing 213 n n 
#
_atom_sites.entry_id                     7KPB 
_atom_sites.fract_transf_matrix[1][1]    0.010049 
_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]    0.010049 
_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]    0.003212 
_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
H 5 GOL A 1 201 1 GOL GOL . 
I 5 GOL B 1 201 7 GOL GOL . 
J 5 GOL B 1 202 8 GOL GOL . 
K 6 D84 C 1 201 1 D84 733 . 
L 5 GOL F 1 201 2 GOL GOL . 
M 5 GOL F 1 202 3 GOL GOL . 
N 5 GOL F 1 203 4 GOL GOL . 
O 7 NAG E 1 201 200 NAG NAG . 
P 5 GOL E 1 202 5 GOL GOL . 
Q 5 GOL E 1 203 6 GOL GOL . 
R 5 GOL L 1 301 9 GOL GOL . 
S 8 HOH A 1 301 3 HOH HOH . 
S 8 HOH A 2 302 17 HOH HOH . 
S 8 HOH A 3 303 15 HOH HOH . 
S 8 HOH A 4 304 1 HOH HOH . 
T 8 HOH B 1 301 2 HOH HOH . 
T 8 HOH B 2 302 5 HOH HOH . 
T 8 HOH B 3 303 13 HOH HOH . 
T 8 HOH B 4 304 14 HOH HOH . 
T 8 HOH B 5 305 4 HOH HOH . 
U 8 HOH C 1 301 16 HOH HOH . 
U 8 HOH C 2 302 11 HOH HOH . 
U 8 HOH C 3 303 6 HOH HOH . 
U 8 HOH C 4 304 12 HOH HOH . 
U 8 HOH C 5 305 7 HOH HOH . 
V 8 HOH F 1 301 8 HOH HOH . 
W 8 HOH E 1 301 19 HOH HOH . 
W 8 HOH E 2 302 18 HOH HOH . 
W 8 HOH E 3 303 20 HOH HOH . 
W 8 HOH E 4 304 9 HOH HOH . 
X 8 HOH L 1 401 10 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 . . . J 5 -52.075 95.37 21.907 1 91.02 ? C1 GOL 202 B 1 
HETATM 2 O O1 GOL . . . J 5 -52.028 96.108 23.113 1 89.83 ? O1 GOL 202 B 1 
HETATM 3 C C2 GOL . . . J 5 -53.334 94.496 21.839 1 102.5 ? C2 GOL 202 B 1 
HETATM 4 O O2 GOL . . . J 5 -53.076 93.219 22.396 1 83.46 ? O2 GOL 202 B 1 
HETATM 5 C C3 GOL . . . J 5 -54.514 95.151 22.564 1 96.5 ? C3 GOL 202 B 1 
HETATM 6 O O3 GOL . . . J 5 -55.3 95.878 21.641 1 70.59 ? O3 GOL 202 B 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           6 
#