data_2YKL
#
_model_server_result.job_id            aTjoFjEMvX0-F4R_DEX2lw 
_model_server_result.datetime_utc      '2024-11-22 22:51:02' 
_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          2ykl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1213}' 
#
_entry.id    2YKL 
#
_exptl.entry_id    2YKL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              319.399 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            NICOTINE-11-YL-METHYL-(4-ETHYLAMINO-4-OXO)-BUTANOATE 
_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          116.1 
_cell.angle_gamma         90 
_cell.entry_id            2YKL 
_cell.length_a            74.24 
_cell.length_b            78.84 
_cell.length_c            73.69 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2YKL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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 22 H CYS 22 1_555 A SG CYS 91 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf2 A SG CYS 144 H CYS 140 1_555 A SG CYS 200 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf3 B SG CYS 22 L CYS 23 1_555 B SG CYS 89 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf4 B SG CYS 138 L CYS 134 1_555 B SG CYS 197 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
#
_chem_comp.formula           'C17 H25 N3 O3' 
_chem_comp.formula_weight    319.399 
_chem_comp.id                NLD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              NICOTINE-11-YL-METHYL-(4-ETHYLAMINO-4-OXO)-BUTANOATE 
_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
O19 C15 NLD doub 237 n n 
C15 C16 NLD sing 238 n n 
C15 O14 NLD sing 239 n n 
C16 C17 NLD sing 240 n n 
C17 C18 NLD sing 241 n n 
O14 C13 NLD sing 242 n n 
C13 C7 NLD sing 243 n n 
C7 C6 NLD sing 244 n n 
C7 C8 NLD sing 245 n n 
C6 N2 NLD sing 246 n n 
C6 C2 NLD sing 247 n n 
N2 C10 NLD sing 248 n n 
N2 C9 NLD sing 249 n n 
C9 C8 NLD sing 250 n n 
C2 C1 NLD sing 251 n y 
C2 C3 NLD doub 252 n y 
C1 N1 NLD doub 253 n y 
N1 C5 NLD sing 254 n y 
C5 C4 NLD doub 255 n y 
C4 C3 NLD sing 256 n y 
C18 O20 NLD doub 257 n n 
C18 N21 NLD sing 258 n n 
N21 C22 NLD sing 259 n n 
C22 C23 NLD sing 260 n n 
C16 H161 NLD sing 261 n n 
C16 H162 NLD sing 262 n n 
C17 H171 NLD sing 263 n n 
C17 H172 NLD sing 264 n n 
C13 H131 NLD sing 265 n n 
C13 H132 NLD sing 266 n n 
C7 H7 NLD sing 267 n n 
C6 H6 NLD sing 268 n n 
C8 H81C NLD sing 269 n n 
C8 H82C NLD sing 270 n n 
C10 H101 NLD sing 271 n n 
C10 H102 NLD sing 272 n n 
C10 H103 NLD sing 273 n n 
C9 H91C NLD sing 274 n n 
C9 H92C NLD sing 275 n n 
C1 H1 NLD sing 276 n n 
C3 H3 NLD sing 277 n n 
C5 H5 NLD sing 278 n n 
C4 H4 NLD sing 279 n n 
C23 H231 NLD sing 280 n n 
C23 H232 NLD sing 281 n n 
C23 H233 NLD sing 282 n n 
C22 H221 NLD sing 283 n n 
C22 H222 NLD sing 284 n n 
N21 H21 NLD sing 285 n n 
#
_atom_sites.entry_id                     2YKL 
_atom_sites.fract_transf_matrix[1][1]    0.01347 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.006599 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012684 
_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]    0.015111 
_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
C 3 NLD H 1 1213 1213 NLD NLD . 
D 4 HOH H 1 2001 2001 HOH HOH . 
D 4 HOH H 2 2002 2002 HOH HOH . 
D 4 HOH H 3 2003 2003 HOH HOH . 
D 4 HOH H 4 2004 2004 HOH HOH . 
D 4 HOH H 5 2005 2005 HOH HOH . 
D 4 HOH H 6 2006 2006 HOH HOH . 
D 4 HOH H 7 2007 2007 HOH HOH . 
D 4 HOH H 8 2008 2008 HOH HOH . 
D 4 HOH H 9 2009 2009 HOH HOH . 
D 4 HOH H 10 2010 2010 HOH HOH . 
D 4 HOH H 11 2011 2011 HOH HOH . 
D 4 HOH H 12 2012 2012 HOH HOH . 
D 4 HOH H 13 2013 2013 HOH HOH . 
D 4 HOH H 14 2014 2014 HOH HOH . 
D 4 HOH H 15 2015 2015 HOH HOH . 
D 4 HOH H 16 2016 2016 HOH HOH . 
D 4 HOH H 17 2017 2017 HOH HOH . 
D 4 HOH H 18 2018 2018 HOH HOH . 
D 4 HOH H 19 2019 2019 HOH HOH . 
D 4 HOH H 20 2020 2020 HOH HOH . 
D 4 HOH H 21 2021 2021 HOH HOH . 
D 4 HOH H 22 2022 2022 HOH HOH . 
D 4 HOH H 23 2023 2023 HOH HOH . 
D 4 HOH H 24 2024 2024 HOH HOH . 
D 4 HOH H 25 2025 2025 HOH HOH . 
D 4 HOH H 26 2026 2026 HOH HOH . 
D 4 HOH H 27 2027 2027 HOH HOH . 
D 4 HOH H 28 2028 2028 HOH HOH . 
D 4 HOH H 29 2029 2029 HOH HOH . 
D 4 HOH H 30 2030 2030 HOH HOH . 
D 4 HOH H 31 2031 2031 HOH HOH . 
D 4 HOH H 32 2032 2032 HOH HOH . 
D 4 HOH H 33 2033 2033 HOH HOH . 
D 4 HOH H 34 2034 2034 HOH HOH . 
D 4 HOH H 35 2035 2035 HOH HOH . 
D 4 HOH H 36 2036 2036 HOH HOH . 
D 4 HOH H 37 2037 2037 HOH HOH . 
D 4 HOH H 38 2038 2038 HOH HOH . 
D 4 HOH H 39 2039 2039 HOH HOH . 
D 4 HOH H 40 2040 2040 HOH HOH . 
D 4 HOH H 41 2041 2041 HOH HOH . 
D 4 HOH H 42 2042 2042 HOH HOH . 
D 4 HOH H 43 2043 2043 HOH HOH . 
D 4 HOH H 44 2044 2044 HOH HOH . 
D 4 HOH H 45 2045 2045 HOH HOH . 
D 4 HOH H 46 2046 2046 HOH HOH . 
D 4 HOH H 47 2047 2047 HOH HOH . 
D 4 HOH H 48 2048 2048 HOH HOH . 
D 4 HOH H 49 2049 2049 HOH HOH . 
D 4 HOH H 50 2050 2050 HOH HOH . 
D 4 HOH H 51 2051 2051 HOH HOH . 
D 4 HOH H 52 2052 2052 HOH HOH . 
D 4 HOH H 53 2053 2053 HOH HOH . 
D 4 HOH H 54 2054 2054 HOH HOH . 
D 4 HOH H 55 2055 2055 HOH HOH . 
D 4 HOH H 56 2056 2056 HOH HOH . 
D 4 HOH H 57 2057 2057 HOH HOH . 
D 4 HOH H 58 2058 2058 HOH HOH . 
D 4 HOH H 59 2059 2059 HOH HOH . 
D 4 HOH H 60 2060 2060 HOH HOH . 
D 4 HOH H 61 2061 2061 HOH HOH . 
D 4 HOH H 62 2062 2062 HOH HOH . 
D 4 HOH H 63 2063 2063 HOH HOH . 
D 4 HOH H 64 2064 2064 HOH HOH . 
D 4 HOH H 65 2065 2065 HOH HOH . 
D 4 HOH H 66 2066 2066 HOH HOH . 
D 4 HOH H 67 2067 2067 HOH HOH . 
D 4 HOH H 68 2068 2068 HOH HOH . 
D 4 HOH H 69 2069 2069 HOH HOH . 
D 4 HOH H 70 2070 2070 HOH HOH . 
D 4 HOH H 71 2071 2071 HOH HOH . 
D 4 HOH H 72 2072 2072 HOH HOH . 
D 4 HOH H 73 2073 2073 HOH HOH . 
D 4 HOH H 74 2074 2074 HOH HOH . 
D 4 HOH H 75 2075 2075 HOH HOH . 
D 4 HOH H 76 2076 2076 HOH HOH . 
D 4 HOH H 77 2077 2077 HOH HOH . 
D 4 HOH H 78 2078 2078 HOH HOH . 
D 4 HOH H 79 2079 2079 HOH HOH . 
E 4 HOH L 1 2001 2001 HOH HOH . 
E 4 HOH L 2 2002 2002 HOH HOH . 
E 4 HOH L 3 2003 2003 HOH HOH . 
E 4 HOH L 4 2004 2004 HOH HOH . 
E 4 HOH L 5 2005 2005 HOH HOH . 
E 4 HOH L 6 2006 2006 HOH HOH . 
E 4 HOH L 7 2007 2007 HOH HOH . 
E 4 HOH L 8 2008 2008 HOH HOH . 
E 4 HOH L 9 2009 2009 HOH HOH . 
E 4 HOH L 10 2010 2010 HOH HOH . 
E 4 HOH L 11 2011 2011 HOH HOH . 
E 4 HOH L 12 2012 2012 HOH HOH . 
E 4 HOH L 13 2013 2013 HOH HOH . 
E 4 HOH L 14 2014 2014 HOH HOH . 
E 4 HOH L 15 2015 2015 HOH HOH . 
E 4 HOH L 16 2016 2016 HOH HOH . 
E 4 HOH L 17 2017 2017 HOH HOH . 
E 4 HOH L 18 2018 2018 HOH HOH . 
E 4 HOH L 19 2019 2019 HOH HOH . 
E 4 HOH L 20 2020 2020 HOH HOH . 
E 4 HOH L 21 2021 2021 HOH HOH . 
E 4 HOH L 22 2022 2022 HOH HOH . 
E 4 HOH L 23 2023 2023 HOH HOH . 
E 4 HOH L 24 2024 2024 HOH HOH . 
E 4 HOH L 25 2025 2025 HOH HOH . 
E 4 HOH L 26 2026 2026 HOH HOH . 
E 4 HOH L 27 2027 2027 HOH HOH . 
E 4 HOH L 28 2028 2028 HOH HOH . 
E 4 HOH L 29 2029 2029 HOH HOH . 
E 4 HOH L 30 2030 2030 HOH HOH . 
E 4 HOH L 31 2031 2031 HOH HOH . 
E 4 HOH L 32 2032 2032 HOH HOH . 
E 4 HOH L 33 2033 2033 HOH HOH . 
E 4 HOH L 34 2034 2034 HOH HOH . 
E 4 HOH L 35 2035 2035 HOH HOH . 
E 4 HOH L 36 2036 2036 HOH HOH . 
E 4 HOH L 37 2037 2037 HOH HOH . 
E 4 HOH L 38 2038 2038 HOH HOH . 
E 4 HOH L 39 2039 2039 HOH HOH . 
E 4 HOH L 40 2040 2040 HOH HOH . 
E 4 HOH L 41 2041 2041 HOH HOH . 
E 4 HOH L 42 2042 2042 HOH HOH . 
E 4 HOH L 43 2043 2043 HOH HOH . 
E 4 HOH L 44 2044 2044 HOH HOH . 
E 4 HOH L 45 2045 2045 HOH HOH . 
E 4 HOH L 46 2046 2046 HOH HOH . 
E 4 HOH L 47 2047 2047 HOH HOH . 
E 4 HOH L 48 2048 2048 HOH HOH . 
E 4 HOH L 49 2049 2049 HOH HOH . 
E 4 HOH L 50 2050 2050 HOH HOH . 
E 4 HOH L 51 2051 2051 HOH HOH . 
E 4 HOH L 52 2052 2052 HOH HOH . 
E 4 HOH L 53 2053 2053 HOH HOH . 
E 4 HOH L 54 2054 2054 HOH HOH . 
E 4 HOH L 55 2055 2055 HOH HOH . 
E 4 HOH L 56 2056 2056 HOH HOH . 
E 4 HOH L 57 2057 2057 HOH HOH . 
E 4 HOH L 58 2058 2058 HOH HOH . 
E 4 HOH L 59 2059 2059 HOH HOH . 
E 4 HOH L 60 2060 2060 HOH HOH . 
E 4 HOH L 61 2061 2061 HOH HOH . 
E 4 HOH L 62 2062 2062 HOH HOH . 
E 4 HOH L 63 2063 2063 HOH HOH . 
E 4 HOH L 64 2064 2064 HOH HOH . 
E 4 HOH L 65 2065 2065 HOH HOH . 
E 4 HOH L 66 2066 2066 HOH HOH . 
E 4 HOH L 67 2067 2067 HOH HOH . 
E 4 HOH L 68 2068 2068 HOH HOH . 
E 4 HOH L 69 2069 2069 HOH HOH . 
E 4 HOH L 70 2070 2070 HOH HOH . 
E 4 HOH L 71 2071 2071 HOH HOH . 
E 4 HOH L 72 2072 2072 HOH HOH . 
E 4 HOH L 73 2073 2073 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 O O19 NLD . . . C 3 -19.175 2.268 6.647 1 28.14 ? O19 NLD 1213 H 1 
HETATM 2 C C15 NLD . . . C 3 -20.346 1.897 6.702 1 28.32 ? C15 NLD 1213 H 1 
HETATM 3 C C16 NLD . . . C 3 -21.061 1.58 7.998 1 31.47 ? C16 NLD 1213 H 1 
HETATM 4 C C17 NLD . . . C 3 -20.097 1.145 9.105 1 34.06 ? C17 NLD 1213 H 1 
HETATM 5 C C18 NLD . . . C 3 -20.806 0.217 10.08 1 36.5 ? C18 NLD 1213 H 1 
HETATM 6 O O14 NLD . . . C 3 -21.084 1.766 5.47 1 25.37 ? O14 NLD 1213 H 1 
HETATM 7 C C13 NLD . . . C 3 -20.43 1.967 4.232 1 23.75 ? C13 NLD 1213 H 1 
HETATM 8 C C7 NLD . . . C 3 -21.357 1.527 3.122 1 22.93 ? C7 NLD 1213 H 1 
HETATM 9 C C6 NLD . . . C 3 -20.728 1.756 1.757 1 20.02 ? C6 NLD 1213 H 1 
HETATM 10 N N2 NLD . . . C 3 -21.272 0.641 0.947 1 19.31 ? N2 NLD 1213 H 1 
HETATM 11 C C10 NLD . . . C 3 -20.485 0.361 -0.271 1 20.63 ? C10 NLD 1213 H 1 
HETATM 12 C C9 NLD . . . C 3 -21.179 -0.522 1.854 1 21.49 ? C9 NLD 1213 H 1 
HETATM 13 C C8 NLD . . . C 3 -21.557 0.023 3.226 1 23.37 ? C8 NLD 1213 H 1 
HETATM 14 C C2 NLD . . . C 3 -20.935 3.138 1.217 1 19.57 ? C2 NLD 1213 H 1 
HETATM 15 C C1 NLD . . . C 3 -19.799 3.886 0.891 1 18.85 ? C1 NLD 1213 H 1 
HETATM 16 N N1 NLD . . . C 3 -19.948 5.126 0.399 1 17.8 ? N1 NLD 1213 H 1 
HETATM 17 C C5 NLD . . . C 3 -21.159 5.692 0.207 1 18.57 ? C5 NLD 1213 H 1 
HETATM 18 C C4 NLD . . . C 3 -22.33 5 0.508 1 17.41 ? C4 NLD 1213 H 1 
HETATM 19 C C3 NLD . . . C 3 -22.198 3.703 1.013 1 18.77 ? C3 NLD 1213 H 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           19 
#