data_3KEH
#
_model_server_result.job_id            M0wbmj_bWSSJsSBmjlWq0w 
_model_server_result.datetime_utc      '2024-11-09 02:10:00' 
_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          3keh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":498}' 
#
_entry.id    3KEH 
#
_exptl.entry_id    3KEH 
_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    2 
_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            3KEH 
_cell.length_a            107.83 
_cell.length_b            285.92 
_cell.length_c            92 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3KEH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 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
? dimeric 2 author_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
PISA tetrameric 4 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R 1 1 
B,C,L,M,N,O,P,R 2 1 
A,D,E,F,G,H,I,J,K,Q 2 2 
B,C,L,M,N,O,P,R 3 1,3 
A,D,E,F,G,H,I,J,K,Q 3 4,2 
#
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 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 8_455 x-1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 -53.915 142.96 0 
3 'crystal symmetry operation' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 46 
4 'crystal symmetry operation' 6_555 -x+1/2,-y+1/2,z+1/2 -1 0 0 0 -1 0 0 0 1 53.915 142.96 46 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 J N N 
? 5 P N N 
#
_pdbx_entity_branch.entity_id    2 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   2 
_pdbx_entity_branch_link.entity_branch_list_num_1    2 
_pdbx_entity_branch_link.entity_branch_list_num_2    1 
_pdbx_entity_branch_link.comp_id_1                   NAG 
_pdbx_entity_branch_link.comp_id_2                   NAG 
_pdbx_entity_branch_link.atom_id_1                   C1 
_pdbx_entity_branch_link.leaving_atom_id_1           O1 
_pdbx_entity_branch_link.atom_stereo_config_1        . 
_pdbx_entity_branch_link.atom_id_2                   O4 
_pdbx_entity_branch_link.leaving_atom_id_2           HO4 
_pdbx_entity_branch_link.atom_stereo_config_2        . 
_pdbx_entity_branch_link.value_order                 sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
2 n C NAG 1 C 1 NAG B 1503 NAG 
2 n C NAG 2 C 2 NAG B 1504 NAG 
#
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 4 A CYS 4 1_555 A SG CYS 16 A CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
disulf ? disulf2 A SG CYS 18 A CYS 18 1_555 A SG CYS 23 A CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
disulf ? disulf3 B SG CYS 4 B CYS 4 1_555 B SG CYS 16 B CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? 
disulf ? disulf4 B SG CYS 18 B CYS 18 1_555 B SG CYS 23 B CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
covale ? covale1 B ND2 ASN 19 B ASN 19 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? 
covale ? covale2 B ND2 ASN 146 B ASN 146 1_555 O C1 NAG . B NAG 1505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? 
covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? 
#
_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                     3KEH 
_atom_sites.fract_transf_matrix[1][1]    0.009274 
_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]    0.003497 
_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]    0.01087 
_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 3 NDG A 1 1997 1997 NDG NDG . 
E 4 SO4 A 1 1501 1501 SO4 SO4 . 
F 4 SO4 A 1 1502 1502 SO4 SO4 . 
G 4 SO4 A 1 1504 1504 SO4 SO4 . 
H 4 SO4 A 1 1506 1506 SO4 SO4 . 
I 4 SO4 A 1 1507 1507 SO4 SO4 . 
J 5 GOL A 1 1509 1509 GOL GOL . 
K 6 NAG A 1 1998 1998 NAG NAG . 
L 4 SO4 B 1 1499 1499 SO4 SO4 . 
M 4 SO4 B 1 1500 1500 SO4 SO4 . 
N 4 SO4 B 1 1502 1502 SO4 SO4 . 
O 6 NAG B 1 1505 1505 NAG NAG . 
P 5 GOL B 1 498 1503 GOL GOL . 
Q 7 HOH A 1 498 1 HOH HOH . 
Q 7 HOH A 2 499 15 HOH HOH . 
Q 7 HOH A 3 500 40 HOH HOH . 
Q 7 HOH A 4 501 42 HOH HOH . 
Q 7 HOH A 5 502 44 HOH HOH . 
Q 7 HOH A 6 503 63 HOH HOH . 
Q 7 HOH A 7 504 112 HOH HOH . 
Q 7 HOH A 8 505 201 HOH HOH . 
Q 7 HOH A 9 506 230 HOH HOH . 
Q 7 HOH A 10 507 246 HOH HOH . 
Q 7 HOH A 11 508 10 HOH HOH . 
Q 7 HOH A 12 509 65 HOH HOH . 
Q 7 HOH A 13 510 67 HOH HOH . 
Q 7 HOH A 14 511 119 HOH HOH . 
Q 7 HOH A 15 512 35 HOH HOH . 
Q 7 HOH A 16 513 57 HOH HOH . 
R 7 HOH B 1 499 3 HOH HOH . 
R 7 HOH B 2 500 4 HOH HOH . 
R 7 HOH B 3 501 17 HOH HOH . 
R 7 HOH B 4 502 21 HOH HOH . 
R 7 HOH B 5 503 50 HOH HOH . 
R 7 HOH B 6 504 51 HOH HOH . 
R 7 HOH B 7 505 90 HOH HOH . 
R 7 HOH B 8 506 104 HOH HOH . 
R 7 HOH B 9 507 116 HOH HOH . 
R 7 HOH B 10 508 122 HOH HOH . 
R 7 HOH B 11 509 123 HOH HOH . 
R 7 HOH B 12 510 124 HOH HOH . 
R 7 HOH B 13 511 128 HOH HOH . 
R 7 HOH B 14 512 167 HOH HOH . 
R 7 HOH B 15 513 212 HOH HOH . 
R 7 HOH B 16 514 215 HOH HOH . 
R 7 HOH B 17 515 229 HOH HOH . 
R 7 HOH B 18 516 236 HOH HOH . 
R 7 HOH B 19 517 101 HOH HOH . 
R 7 HOH B 20 518 139 HOH HOH . 
R 7 HOH B 21 519 164 HOH HOH . 
R 7 HOH B 22 520 177 HOH HOH . 
R 7 HOH B 23 521 2 HOH HOH . 
R 7 HOH B 24 522 46 HOH HOH . 
R 7 HOH B 25 523 115 HOH HOH . 
R 7 HOH B 26 524 11 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 . . . P 5 12.251 40.849 8.059 1 36.76 ? C1 GOL 498 B 1 
HETATM 2 O O1 GOL . . . P 5 12.876 41.988 7.503 1 37.06 ? O1 GOL 498 B 1 
HETATM 3 C C2 GOL . . . P 5 11.705 41.164 9.45 1 37.27 ? C2 GOL 498 B 1 
HETATM 4 O O2 GOL . . . P 5 12.776 41.642 10.242 1 37.7 ? O2 GOL 498 B 1 
HETATM 5 C C3 GOL . . . P 5 11.067 39.887 10.023 1 36.84 ? C3 GOL 498 B 1 
HETATM 6 O O3 GOL . . . P 5 10.578 40.053 11.339 1 35.57 ? O3 GOL 498 B 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           318 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           6 
#