data_2XLC
#
_model_server_result.job_id            '_hoXgmoiOkRvEQzguxyPzQ' 
_model_server_result.datetime_utc      '2024-12-26 20:02:56' 
_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          2xlc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1319}' 
#
_entry.id    2XLC 
#
_exptl.entry_id    2XLC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              138.102 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'DIETHYL PHOSPHONATE' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          105.6 
_cell.angle_gamma         90 
_cell.entry_id            2XLC 
_cell.length_a            82.049 
_cell.length_b            116.052 
_cell.length_c            100.248 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2XLC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
#
_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 
_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
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L 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
covale ? covale1 A C GLY 114 A GLY 114 1_555 A N MSE 115 A MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C MSE 115 A MSE 115 1_555 A N LEU 116 A LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale3 A C TRP 137 A TRP 137 1_555 A N MSE 138 A MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale4 A C MSE 138 A MSE 138 1_555 A N THR 139 A THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale5 A OG SER 181 A SER 181 1_555 G P DEP . A DEP 1318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.545 ? 
covale ? covale6 A C LEU 262 A LEU 262 1_555 A N MSE 263 A MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale7 A C MSE 263 A MSE 263 1_555 A N ALA 264 A ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale8 B C GLY 114 B GLY 114 1_555 B N MSE 115 B MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale9 B C MSE 115 B MSE 115 1_555 B N LEU 116 B LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale10 B C TRP 137 B TRP 137 1_555 B N MSE 138 B MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale11 B C MSE 138 B MSE 138 1_555 B N THR 139 B THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale12 B OG SER 181 B SER 181 1_555 H P DEP . B DEP 1318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.707 ? 
covale ? covale13 B C LEU 262 B LEU 262 1_555 B N MSE 263 B MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale14 B C MSE 263 B MSE 263 1_555 B N ALA 264 B ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale15 C C GLY 114 C GLY 114 1_555 C N MSE 115 C MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale16 C C MSE 115 C MSE 115 1_555 C N LEU 116 C LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale17 C C TRP 137 C TRP 137 1_555 C N MSE 138 C MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale18 C C MSE 138 C MSE 138 1_555 C N THR 139 C THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale19 C OG SER 181 C SER 181 1_555 I P DEP . C DEP 1318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.591 ? 
covale ? covale20 C C LEU 262 C LEU 262 1_555 C N MSE 263 C MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale21 C C MSE 263 C MSE 263 1_555 C N ALA 264 C ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale22 D C GLY 114 D GLY 114 1_555 D N MSE 115 D MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale23 D C MSE 115 D MSE 115 1_555 D N LEU 116 D LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale24 D C TRP 137 D TRP 137 1_555 D N MSE 138 D MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale25 D C MSE 138 D MSE 138 1_555 D N THR 139 D THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale26 D OG SER 181 D SER 181 1_555 J P DEP . D DEP 1318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.72 ? 
covale ? covale27 D C LEU 262 D LEU 262 1_555 D N MSE 263 D MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale28 D C MSE 263 D MSE 263 1_555 D N ALA 264 D ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale29 E C GLY 114 E GLY 114 1_555 E N MSE 115 E MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale30 E C MSE 115 E MSE 115 1_555 E N LEU 116 E LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale31 E C TRP 137 E TRP 137 1_555 E N MSE 138 E MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale32 E C MSE 138 E MSE 138 1_555 E N THR 139 E THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale33 E OG SER 181 E SER 181 1_555 K P DEP . E DEP 1319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.822 ? 
covale ? covale34 E C LEU 262 E LEU 262 1_555 E N MSE 263 E MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale35 E C MSE 263 E MSE 263 1_555 E N ALA 264 E ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale36 F C GLY 114 F GLY 114 1_555 F N MSE 115 F MSE 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale37 F C MSE 115 F MSE 115 1_555 F N LEU 116 F LEU 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale38 F C TRP 137 F TRP 137 1_555 F N MSE 138 F MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale39 F C MSE 138 F MSE 138 1_555 F N THR 139 F THR 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale40 F OG SER 181 F SER 181 1_555 L P DEP . F DEP 1319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.533 ? 
covale ? covale41 F C LEU 262 F LEU 262 1_555 F N MSE 263 F MSE 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale42 F C MSE 263 F MSE 263 1_555 F N ALA 264 F ALA 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
#
_chem_comp.formula           'C4 H11 O3 P' 
_chem_comp.formula_weight    138.102 
_chem_comp.id                DEP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'DIETHYL PHOSPHONATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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 C2 DEP sing 70 n n 
C1 O1 DEP sing 71 n n 
C1 H11 DEP sing 72 n n 
C1 H12 DEP sing 73 n n 
C2 H21 DEP sing 74 n n 
C2 H22 DEP sing 75 n n 
C2 H23 DEP sing 76 n n 
C3 C4 DEP sing 77 n n 
C3 O2 DEP sing 78 n n 
C3 H31 DEP sing 79 n n 
C3 H32 DEP sing 80 n n 
C4 H41 DEP sing 81 n n 
C4 H42 DEP sing 82 n n 
C4 H43 DEP sing 83 n n 
O1 P DEP sing 84 n n 
O2 P DEP sing 85 n n 
O3 P DEP doub 86 n n 
HP1 P DEP sing 87 n n 
#
_atom_sites.entry_id                     2XLC 
_atom_sites.fract_transf_matrix[1][1]    0.012188 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003403 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008617 
_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]    0.010357 
_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 2 DEP A 1 1318 1318 DEP DEP . 
H 2 DEP B 1 1318 1318 DEP DEP . 
I 2 DEP C 1 1318 1318 DEP DEP . 
J 2 DEP D 1 1318 1318 DEP DEP . 
K 2 DEP E 1 1319 1319 DEP DEP . 
L 2 DEP F 1 1319 1319 DEP DEP . 
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 . 
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 . 
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 . 
P 3 HOH D 1 2001 2001 HOH HOH . 
P 3 HOH D 2 2002 2002 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 . 
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 . 
#
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 DEP . . . K 2 -14.061 -3.375 6.809 1 53.4 ? C1 DEP 1319 E 1 
HETATM 2 C C2 DEP . . . K 2 -14.928 -4.237 5.891 1 53.19 ? C2 DEP 1319 E 1 
HETATM 3 C C3 DEP . . . K 2 -10.104 -3.586 3.639 1 53.4 ? C3 DEP 1319 E 1 
HETATM 4 C C4 DEP . . . K 2 -8.848 -2.799 3.249 1 53.04 ? C4 DEP 1319 E 1 
HETATM 5 O O1 DEP . . . K 2 -12.761 -3.183 6.247 1 53.63 ? O1 DEP 1319 E 1 
HETATM 6 O O2 DEP . . . K 2 -11.021 -2.781 4.407 1 53.78 ? O2 DEP 1319 E 1 
HETATM 7 O O3 DEP . . . K 2 -13.504 -2.357 3.983 1 54.12 ? O3 DEP 1319 E 1 
HETATM 8 P P DEP . . . K 2 -12.556 -3.278 4.651 1 53.88 ? P DEP 1319 E 1 
#
_model_server_stats.io_time_ms              35 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          28 
_model_server_stats.element_count           8 
#