data_2Y84
#
_model_server_result.job_id            uBU3vCfduPQU_Fwl7v2dAA 
_model_server_result.datetime_utc      '2024-11-16 14:28:54' 
_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          2y84 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":1301}' 
#
_entry.id    2Y84 
#
_exptl.entry_id    2Y84 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    4 
_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            2Y84 
_cell.length_a            81.2 
_cell.length_b            111.5 
_cell.length_c            213.3 
_cell.Z_PDB               32 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Y84 
_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 
PISA dimeric 2 author_and_software_defined_assembly 3 
PISA dimeric 2 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,K,M,Q 1 1 
B,D,I,J,N,P 2 1 
C,H,L,O,T 3 1 
F,G,R,S 4 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
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L N N 
#
_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                     2Y84 
_atom_sites.fract_transf_matrix[1][1]    0.012315 
_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]    0.008969 
_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]    0.004688 
_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
I 2 GOL D 1 1301 1301 GOL GOL . 
J 2 GOL D 1 1302 1302 GOL GOL . 
K 2 GOL E 1 1301 1301 GOL GOL . 
L 2 GOL H 1 1301 1301 GOL GOL . 
M 3 HOH A 1 2001 2001 HOH HOH . 
M 3 HOH A 2 2002 2002 HOH HOH . 
M 3 HOH A 3 2003 2003 HOH HOH . 
M 3 HOH A 4 2004 2004 HOH HOH . 
M 3 HOH A 5 2005 2005 HOH HOH . 
M 3 HOH A 6 2006 2006 HOH HOH . 
M 3 HOH A 7 2007 2007 HOH HOH . 
M 3 HOH A 8 2008 2008 HOH HOH . 
M 3 HOH A 9 2009 2009 HOH HOH . 
M 3 HOH A 10 2010 2010 HOH HOH . 
M 3 HOH A 11 2011 2011 HOH HOH . 
M 3 HOH A 12 2012 2012 HOH HOH . 
M 3 HOH A 13 2013 2013 HOH HOH . 
N 3 HOH B 1 2001 2001 HOH HOH . 
N 3 HOH B 2 2002 2002 HOH HOH . 
N 3 HOH B 3 2003 2003 HOH HOH . 
N 3 HOH B 4 2004 2004 HOH HOH . 
N 3 HOH B 5 2005 2005 HOH HOH . 
N 3 HOH B 6 2006 2006 HOH HOH . 
N 3 HOH B 7 2007 2007 HOH HOH . 
N 3 HOH B 8 2008 2008 HOH HOH . 
N 3 HOH B 9 2009 2009 HOH HOH . 
N 3 HOH B 10 2010 2010 HOH HOH . 
N 3 HOH B 11 2011 2011 HOH HOH . 
N 3 HOH B 12 2012 2012 HOH HOH . 
N 3 HOH B 13 2013 2013 HOH HOH . 
N 3 HOH B 14 2014 2014 HOH HOH . 
N 3 HOH B 15 2015 2015 HOH HOH . 
N 3 HOH B 16 2016 2016 HOH HOH . 
O 3 HOH C 1 2001 2001 HOH HOH . 
O 3 HOH C 2 2002 2002 HOH HOH . 
O 3 HOH C 3 2003 2003 HOH HOH . 
O 3 HOH C 4 2004 2004 HOH HOH . 
O 3 HOH C 5 2005 2005 HOH HOH . 
O 3 HOH C 6 2006 2006 HOH HOH . 
O 3 HOH C 7 2007 2007 HOH HOH . 
O 3 HOH C 8 2008 2008 HOH HOH . 
O 3 HOH C 9 2009 2009 HOH HOH . 
O 3 HOH C 10 2010 2010 HOH HOH . 
O 3 HOH C 11 2011 2011 HOH HOH . 
O 3 HOH C 12 2012 2012 HOH HOH . 
O 3 HOH C 13 2013 2013 HOH HOH . 
O 3 HOH C 14 2014 2014 HOH HOH . 
O 3 HOH C 15 2015 2015 HOH HOH . 
O 3 HOH C 16 2016 2016 HOH HOH . 
O 3 HOH C 17 2017 2017 HOH HOH . 
O 3 HOH C 18 2018 2018 HOH HOH . 
P 3 HOH D 1 2001 2001 HOH HOH . 
P 3 HOH D 2 2002 2002 HOH HOH . 
P 3 HOH D 3 2003 2003 HOH HOH . 
P 3 HOH D 4 2004 2004 HOH HOH . 
P 3 HOH D 5 2005 2005 HOH HOH . 
P 3 HOH D 6 2006 2006 HOH HOH . 
P 3 HOH D 7 2007 2007 HOH HOH . 
P 3 HOH D 8 2008 2008 HOH HOH . 
P 3 HOH D 9 2009 2009 HOH HOH . 
P 3 HOH D 10 2010 2010 HOH HOH . 
Q 3 HOH E 1 2001 2001 HOH HOH . 
Q 3 HOH E 2 2002 2002 HOH HOH . 
Q 3 HOH E 3 2003 2003 HOH HOH . 
Q 3 HOH E 4 2004 2004 HOH HOH . 
Q 3 HOH E 5 2005 2005 HOH HOH . 
Q 3 HOH E 6 2006 2006 HOH HOH . 
Q 3 HOH E 7 2007 2007 HOH HOH . 
Q 3 HOH E 8 2008 2008 HOH HOH . 
Q 3 HOH E 9 2009 2009 HOH HOH . 
Q 3 HOH E 10 2010 2010 HOH HOH . 
Q 3 HOH E 11 2011 2011 HOH HOH . 
Q 3 HOH E 12 2012 2012 HOH HOH . 
Q 3 HOH E 13 2013 2013 HOH HOH . 
Q 3 HOH E 14 2014 2014 HOH HOH . 
Q 3 HOH E 15 2015 2015 HOH HOH . 
Q 3 HOH E 16 2016 2016 HOH HOH . 
Q 3 HOH E 17 2017 2017 HOH HOH . 
Q 3 HOH E 18 2018 2018 HOH HOH . 
Q 3 HOH E 19 2019 2019 HOH HOH . 
Q 3 HOH E 20 2020 2020 HOH HOH . 
R 3 HOH F 1 2001 2001 HOH HOH . 
R 3 HOH F 2 2002 2002 HOH HOH . 
R 3 HOH F 3 2003 2003 HOH HOH . 
R 3 HOH F 4 2004 2004 HOH HOH . 
R 3 HOH F 5 2005 2005 HOH HOH . 
R 3 HOH F 6 2006 2006 HOH HOH . 
R 3 HOH F 7 2007 2007 HOH HOH . 
R 3 HOH F 8 2008 2008 HOH HOH . 
S 3 HOH G 1 2001 2001 HOH HOH . 
S 3 HOH G 2 2002 2002 HOH HOH . 
S 3 HOH G 3 2003 2003 HOH HOH . 
S 3 HOH G 4 2004 2004 HOH HOH . 
S 3 HOH G 5 2005 2005 HOH HOH . 
S 3 HOH G 6 2006 2006 HOH HOH . 
S 3 HOH G 7 2007 2007 HOH HOH . 
S 3 HOH G 8 2008 2008 HOH HOH . 
S 3 HOH G 9 2009 2009 HOH HOH . 
S 3 HOH G 10 2010 2010 HOH HOH . 
T 3 HOH H 1 2001 2001 HOH HOH . 
T 3 HOH H 2 2002 2002 HOH HOH . 
T 3 HOH H 3 2003 2003 HOH HOH . 
T 3 HOH H 4 2004 2004 HOH HOH . 
T 3 HOH H 5 2005 2005 HOH HOH . 
T 3 HOH H 6 2006 2006 HOH HOH . 
T 3 HOH H 7 2007 2007 HOH HOH . 
T 3 HOH H 8 2008 2008 HOH HOH . 
T 3 HOH H 9 2009 2009 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 . . . L 2 16.554 49.339 58.621 1 30.29 ? C1 GOL 1301 H 1 
HETATM 2 O O1 GOL . . . L 2 16.023 48.421 57.693 1 26.99 ? O1 GOL 1301 H 1 
HETATM 3 C C2 GOL . . . L 2 18.074 49.359 58.509 1 33.51 ? C2 GOL 1301 H 1 
HETATM 4 O O2 GOL . . . L 2 18.534 50.688 58.589 1 32.1 ? O2 GOL 1301 H 1 
HETATM 5 C C3 GOL . . . L 2 18.701 48.55 59.636 1 31.19 ? C3 GOL 1301 H 1 
HETATM 6 O O3 GOL . . . L 2 19.579 49.379 60.365 1 30.56 ? O3 GOL 1301 H 1 
#
_model_server_stats.io_time_ms              58 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    45 
_model_server_stats.query_time_ms           366 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           6 
#