data_3DHK
#
_model_server_result.job_id            chwlGHfpkL-QveQD9g293Q 
_model_server_result.datetime_utc      '2024-11-26 08:52:52' 
_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          3dhk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1601}' 
#
_entry.id    3DHK 
#
_exptl.entry_id    3DHK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              461.983 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            beta-phenyl-D-phenylalanyl-N-(3-chlorobenzyl)-L-prolinamide 
_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          100.32 
_cell.angle_gamma         90 
_cell.entry_id            3DHK 
_cell.length_a            69.95 
_cell.length_b            71.34 
_cell.length_c            72.44 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3DHK 
_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    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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                      4 
_struct_asym.id                             D 
_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 9 L CYS 1 1_555 B SG CYS 119 H CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf2 B SG CYS 28 H CYS 42 1_555 B SG CYS 44 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf3 B SG CYS 173 H CYS 168 1_555 B SG CYS 187 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf4 B SG CYS 201 H CYS 191 1_555 B SG CYS 231 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? 
covale ? covale1 C C GLU 9 I GLU 62 1_555 C N TYS 10 I TYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
#
_chem_comp.formula           'C27 H28 Cl N3 O2' 
_chem_comp.formula_weight    461.983 
_chem_comp.id                23U 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              beta-phenyl-D-phenylalanyl-N-(3-chlorobenzyl)-L-prolinamide 
_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 23U doub 1 n y 
C1 C6 23U sing 2 n y 
C1 C8 23U sing 3 n n 
C2 C3 23U sing 4 n y 
C3 C4 23U doub 5 n y 
C4 C5 23U sing 6 n y 
C5 C6 23U doub 7 n y 
C7 C8 23U sing 8 n n 
C7 C23 23U doub 9 n y 
C7 C27 23U sing 10 n y 
C8 C9 23U sing 11 n n 
C9 N2 23U sing 12 n n 
C9 C10 23U sing 13 n n 
C10 O32 23U doub 14 n n 
C10 N1 23U sing 15 n n 
N1 C11 23U sing 16 n n 
N1 C14 23U sing 17 n n 
C11 C12 23U sing 18 n n 
C12 C13 23U sing 19 n n 
C13 C14 23U sing 20 n n 
C14 C15 23U sing 21 n n 
C15 N23 23U sing 22 n n 
C15 O22 23U doub 23 n n 
N23 C16 23U sing 24 n n 
C16 C17 23U sing 25 n n 
C17 C18 23U doub 26 n y 
C17 C22 23U sing 27 n y 
C18 C19 23U sing 28 n y 
C19 C20 23U doub 29 n y 
C20 C21 23U sing 30 n y 
C21 C22 23U doub 31 n y 
C21 CL1 23U sing 32 n n 
C23 C24 23U sing 33 n y 
C24 C25 23U doub 34 n y 
C25 C26 23U sing 35 n y 
C26 C27 23U doub 36 n y 
C2 H2 23U sing 37 n n 
C3 H3 23U sing 38 n n 
C4 H4 23U sing 39 n n 
C5 H5 23U sing 40 n n 
C6 H6 23U sing 41 n n 
C8 H8 23U sing 42 n n 
C9 H9 23U sing 43 n n 
N2 HN2 23U sing 44 n n 
N2 HN2A 23U sing 45 n n 
C11 H11 23U sing 46 n n 
C11 H11A 23U sing 47 n n 
C12 H12 23U sing 48 n n 
C12 H12A 23U sing 49 n n 
C13 H13 23U sing 50 n n 
C13 H13A 23U sing 51 n n 
C14 H14 23U sing 52 n n 
N23 HN23 23U sing 53 n n 
C16 H16 23U sing 54 n n 
C16 H16A 23U sing 55 n n 
C18 H18 23U sing 56 n n 
C19 H19 23U sing 57 n n 
C20 H20 23U sing 58 n n 
C22 H22 23U sing 59 n n 
C23 H23 23U sing 60 n n 
C24 H24 23U sing 61 n n 
C25 H25 23U sing 62 n n 
C26 H26 23U sing 63 n n 
C27 H27 23U sing 64 n n 
#
_atom_sites.entry_id                     3DHK 
_atom_sites.fract_transf_matrix[1][1]    0.014296 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002603 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014017 
_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]    0.014031 
_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 4 23U H 1 1601 1601 23U 23U . 
E 5 NA H 1 1701 1701 NA NA . 
F 5 NA H 1 1702 1702 NA NA . 
G 6 HOH L 1 2002 2002 HOH HOH . 
G 6 HOH L 2 2009 2009 HOH HOH . 
G 6 HOH L 3 2015 2015 HOH HOH . 
G 6 HOH L 4 2029 2029 HOH HOH . 
G 6 HOH L 5 2031 2031 HOH HOH . 
G 6 HOH L 6 2035 2035 HOH HOH . 
G 6 HOH L 7 2048 2048 HOH HOH . 
G 6 HOH L 8 2064 2064 HOH HOH . 
G 6 HOH L 9 2066 2066 HOH HOH . 
G 6 HOH L 10 2067 2067 HOH HOH . 
G 6 HOH L 11 2068 2068 HOH HOH . 
G 6 HOH L 12 2091 2091 HOH HOH . 
G 6 HOH L 13 2104 2104 HOH HOH . 
G 6 HOH L 14 2105 2105 HOH HOH . 
G 6 HOH L 15 2110 2110 HOH HOH . 
G 6 HOH L 16 2113 2113 HOH HOH . 
G 6 HOH L 17 2117 2117 HOH HOH . 
H 6 HOH H 1 2001 2001 HOH HOH . 
H 6 HOH H 2 2003 2003 HOH HOH . 
H 6 HOH H 3 2004 2004 HOH HOH . 
H 6 HOH H 4 2005 2005 HOH HOH . 
H 6 HOH H 5 2006 2006 HOH HOH . 
H 6 HOH H 6 2007 2007 HOH HOH . 
H 6 HOH H 7 2008 2008 HOH HOH . 
H 6 HOH H 8 2010 2010 HOH HOH . 
H 6 HOH H 9 2011 2011 HOH HOH . 
H 6 HOH H 10 2012 2012 HOH HOH . 
H 6 HOH H 11 2013 2013 HOH HOH . 
H 6 HOH H 12 2014 2014 HOH HOH . 
H 6 HOH H 13 2016 2016 HOH HOH . 
H 6 HOH H 14 2017 2017 HOH HOH . 
H 6 HOH H 15 2018 2018 HOH HOH . 
H 6 HOH H 16 2019 2019 HOH HOH . 
H 6 HOH H 17 2020 2020 HOH HOH . 
H 6 HOH H 18 2021 2021 HOH HOH . 
H 6 HOH H 19 2022 2022 HOH HOH . 
H 6 HOH H 20 2023 2023 HOH HOH . 
H 6 HOH H 21 2024 2024 HOH HOH . 
H 6 HOH H 22 2025 2025 HOH HOH . 
H 6 HOH H 23 2026 2026 HOH HOH . 
H 6 HOH H 24 2027 2027 HOH HOH . 
H 6 HOH H 25 2028 2028 HOH HOH . 
H 6 HOH H 26 2030 2030 HOH HOH . 
H 6 HOH H 27 2032 2032 HOH HOH . 
H 6 HOH H 28 2033 2033 HOH HOH . 
H 6 HOH H 29 2034 2034 HOH HOH . 
H 6 HOH H 30 2036 2036 HOH HOH . 
H 6 HOH H 31 2037 2037 HOH HOH . 
H 6 HOH H 32 2038 2038 HOH HOH . 
H 6 HOH H 33 2039 2039 HOH HOH . 
H 6 HOH H 34 2040 2040 HOH HOH . 
H 6 HOH H 35 2041 2041 HOH HOH . 
H 6 HOH H 36 2042 2042 HOH HOH . 
H 6 HOH H 37 2043 2043 HOH HOH . 
H 6 HOH H 38 2044 2044 HOH HOH . 
H 6 HOH H 39 2045 2045 HOH HOH . 
H 6 HOH H 40 2046 2046 HOH HOH . 
H 6 HOH H 41 2047 2047 HOH HOH . 
H 6 HOH H 42 2049 2049 HOH HOH . 
H 6 HOH H 43 2050 2050 HOH HOH . 
H 6 HOH H 44 2051 2051 HOH HOH . 
H 6 HOH H 45 2052 2052 HOH HOH . 
H 6 HOH H 46 2053 2053 HOH HOH . 
H 6 HOH H 47 2054 2054 HOH HOH . 
H 6 HOH H 48 2055 2055 HOH HOH . 
H 6 HOH H 49 2056 2056 HOH HOH . 
H 6 HOH H 50 2057 2057 HOH HOH . 
H 6 HOH H 51 2058 2058 HOH HOH . 
H 6 HOH H 52 2059 2059 HOH HOH . 
H 6 HOH H 53 2060 2060 HOH HOH . 
H 6 HOH H 54 2061 2061 HOH HOH . 
H 6 HOH H 55 2062 2062 HOH HOH . 
H 6 HOH H 56 2063 2063 HOH HOH . 
H 6 HOH H 57 2065 2065 HOH HOH . 
H 6 HOH H 58 2069 2069 HOH HOH . 
H 6 HOH H 59 2070 2070 HOH HOH . 
H 6 HOH H 60 2071 2071 HOH HOH . 
H 6 HOH H 61 2072 2072 HOH HOH . 
H 6 HOH H 62 2073 2073 HOH HOH . 
H 6 HOH H 63 2074 2074 HOH HOH . 
H 6 HOH H 64 2075 2075 HOH HOH . 
H 6 HOH H 65 2076 2076 HOH HOH . 
H 6 HOH H 66 2077 2077 HOH HOH . 
H 6 HOH H 67 2078 2078 HOH HOH . 
H 6 HOH H 68 2079 2079 HOH HOH . 
H 6 HOH H 69 2080 2080 HOH HOH . 
H 6 HOH H 70 2081 2081 HOH HOH . 
H 6 HOH H 71 2082 2082 HOH HOH . 
H 6 HOH H 72 2083 2083 HOH HOH . 
H 6 HOH H 73 2084 2084 HOH HOH . 
H 6 HOH H 74 2085 2085 HOH HOH . 
H 6 HOH H 75 2086 2086 HOH HOH . 
H 6 HOH H 76 2087 2087 HOH HOH . 
H 6 HOH H 77 2088 2088 HOH HOH . 
H 6 HOH H 78 2089 2089 HOH HOH . 
H 6 HOH H 79 2090 2090 HOH HOH . 
H 6 HOH H 80 2092 2092 HOH HOH . 
H 6 HOH H 81 2093 2093 HOH HOH . 
H 6 HOH H 82 2094 2094 HOH HOH . 
H 6 HOH H 83 2095 2095 HOH HOH . 
H 6 HOH H 84 2096 2096 HOH HOH . 
H 6 HOH H 85 2097 2097 HOH HOH . 
H 6 HOH H 86 2098 2098 HOH HOH . 
H 6 HOH H 87 2099 2099 HOH HOH . 
H 6 HOH H 88 2100 2100 HOH HOH . 
H 6 HOH H 89 2101 2101 HOH HOH . 
H 6 HOH H 90 2102 2102 HOH HOH . 
H 6 HOH H 91 2103 2103 HOH HOH . 
H 6 HOH H 92 2106 2106 HOH HOH . 
H 6 HOH H 93 2107 2107 HOH HOH . 
H 6 HOH H 94 2108 2108 HOH HOH . 
H 6 HOH H 95 2109 2109 HOH HOH . 
H 6 HOH H 96 2111 2111 HOH HOH . 
H 6 HOH H 97 2112 2112 HOH HOH . 
H 6 HOH H 98 2114 2114 HOH HOH . 
H 6 HOH H 99 2115 2115 HOH HOH . 
H 6 HOH H 100 2116 2116 HOH HOH . 
H 6 HOH H 101 2118 2118 HOH HOH . 
H 6 HOH H 102 2119 2119 HOH HOH . 
H 6 HOH H 103 2120 2120 HOH HOH . 
H 6 HOH H 104 2121 2121 HOH HOH . 
H 6 HOH H 105 2122 2122 HOH HOH . 
H 6 HOH H 106 2124 2124 HOH HOH . 
H 6 HOH H 107 2125 2125 HOH HOH . 
H 6 HOH H 108 2126 2126 HOH HOH . 
H 6 HOH H 109 2127 2127 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 23U . . . D 4 19.346 -14.243 24.868 1 18.82 ? C1 23U 1601 H 1 
HETATM 2 C C2 23U . . . D 4 19.633 -13.154 25.685 1 12.92 ? C2 23U 1601 H 1 
HETATM 3 C C3 23U . . . D 4 20.935 -12.658 25.757 1 19.75 ? C3 23U 1601 H 1 
HETATM 4 C C4 23U . . . D 4 21.963 -13.249 25.011 1 21.61 ? C4 23U 1601 H 1 
HETATM 5 C C5 23U . . . D 4 21.689 -14.341 24.19 1 21.05 ? C5 23U 1601 H 1 
HETATM 6 C C6 23U . . . D 4 20.382 -14.835 24.119 1 21.79 ? C6 23U 1601 H 1 
HETATM 7 C C7 23U . . . D 4 17.833 -16.036 25.699 1 25.67 ? C7 23U 1601 H 1 
HETATM 8 C C8 23U . . . D 4 17.907 -14.776 24.798 1 15.77 ? C8 23U 1601 H 1 
HETATM 9 C C9 23U . . . D 4 17.421 -14.982 23.33 1 12.64 ? C9 23U 1601 H 1 
HETATM 10 N N2 23U . . . D 4 16.205 -15.832 23.3 1 16.55 ? N2 23U 1601 H 1 
HETATM 11 C C10 23U . . . D 4 17.248 -13.597 22.683 1 16.1 ? C10 23U 1601 H 1 
HETATM 12 O O32 23U . . . D 4 16.322 -12.94 23.157 1 15.04 ? O32 23U 1601 H 1 
HETATM 13 N N1 23U . . . D 4 17.997 -13.124 21.661 1 13.01 ? N1 23U 1601 H 1 
HETATM 14 C C11 23U . . . D 4 19.04 -13.94 21.012 1 16.9 ? C11 23U 1601 H 1 
HETATM 15 C C12 23U . . . D 4 19.789 -12.814 20.255 1 16.36 ? C12 23U 1601 H 1 
HETATM 16 C C13 23U . . . D 4 18.616 -11.937 19.751 1 16.84 ? C13 23U 1601 H 1 
HETATM 17 C C14 23U . . . D 4 17.733 -11.839 21.028 1 18.04 ? C14 23U 1601 H 1 
HETATM 18 C C15 23U . . . D 4 16.278 -11.736 20.631 1 18.16 ? C15 23U 1601 H 1 
HETATM 19 N N23 23U . . . D 4 15.647 -10.565 20.861 1 16.84 ? N23 23U 1601 H 1 
HETATM 20 C C16 23U . . . D 4 14.286 -10.363 20.36 1 11.17 ? C16 23U 1601 H 1 
HETATM 21 C C17 23U . . . D 4 13.273 -10.316 21.522 1 9.92 ? C17 23U 1601 H 1 
HETATM 22 C C18 23U . . . D 4 12.383 -11.366 21.746 1 8.33 ? C18 23U 1601 H 1 
HETATM 23 C C19 23U . . . D 4 11.466 -11.329 22.796 1 12.22 ? C19 23U 1601 H 1 
HETATM 24 C C20 23U . . . D 4 11.427 -10.226 23.643 1 11.59 ? C20 23U 1601 H 1 
HETATM 25 C C21 23U . . . D 4 12.312 -9.17 23.431 1 18.97 ? C21 23U 1601 H 1 
HETATM 26 C C22 23U . . . D 4 13.231 -9.206 22.381 1 16.13 ? C22 23U 1601 H 1 
HETATM 27 CL CL1 23U . . . D 4 12.243 -7.796 24.514 1 15.7 ? CL1 23U 1601 H 1 
HETATM 28 O O22 23U . . . D 4 15.749 -12.714 20.111 1 17.74 ? O22 23U 1601 H 1 
HETATM 29 C C23 23U . . . D 4 17.283 -16.036 26.981 1 24.8 ? C23 23U 1601 H 1 
HETATM 30 C C24 23U . . . D 4 17.259 -17.22 27.723 1 29.65 ? C24 23U 1601 H 1 
HETATM 31 C C25 23U . . . D 4 17.78 -18.392 27.184 1 37.96 ? C25 23U 1601 H 1 
HETATM 32 C C26 23U . . . D 4 18.334 -18.4 25.899 1 36.66 ? C26 23U 1601 H 1 
HETATM 33 C C27 23U . . . D 4 18.357 -17.218 25.16 1 30.74 ? C27 23U 1601 H 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           332 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           33 
#