data_3EJ8
#
_model_server_result.job_id            DrTHlvFiIJhce98nv23DQw 
_model_server_result.datetime_utc      '2024-10-19 16:45:16' 
_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          3ej8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"R","auth_seq_id":4904}' 
#
_entry.id    3EJ8 
#
_exptl.entry_id    3EJ8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              69.085 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            IMIDAZOLE 
_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            3EJ8 
_cell.length_a            89.883 
_cell.length_b            150.71 
_cell.length_c            191.047 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3EJ8 
_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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I,J,K,S,T 1 1 
C,D,L,M,N,O,P,Q,R,U,V 2 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
? 5 H N N 
? 5 K N N 
? 5 O N N 
? 5 R 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
metalc ? metalc1 A SG CYS 29 A CYS 110 1_555 G ZN ZN . A ZN 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc2 A SG CYS 34 A CYS 115 1_555 G ZN ZN . A ZN 1903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc3 A SG CYS 119 A CYS 200 1_555 E FE HEC . A HEC 1901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? 
metalc ? metalc4 G ZN ZN . A ZN 1903 1_555 B SG CYS 29 B CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
metalc ? metalc5 G ZN ZN . A ZN 1903 1_555 B SG CYS 34 B CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
metalc ? metalc6 B SG CYS 119 B CYS 200 1_555 I FE HEC . B HEC 2901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? 
metalc ? metalc7 C SG CYS 29 C CYS 110 1_555 N ZN ZN . C ZN 3903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? 
metalc ? metalc8 C SG CYS 34 C CYS 115 1_555 N ZN ZN . C ZN 3903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc9 C SG CYS 119 C CYS 200 1_555 L FE HEC . C HEC 3901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? 
metalc ? metalc10 N ZN ZN . C ZN 3903 1_555 D SG CYS 29 D CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
metalc ? metalc11 N ZN ZN . C ZN 3903 1_555 D SG CYS 34 D CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? 
metalc ? metalc12 D SG CYS 119 D CYS 200 1_555 P FE HEC . D HEC 4901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? 
#
_chem_comp.formula           'C3 H5 N2 1' 
_chem_comp.formula_weight    69.085 
_chem_comp.id                IMD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              IMIDAZOLE 
_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
N1 C2 IMD sing 290 n y 
N1 C5 IMD sing 291 n y 
N1 HN1 IMD sing 292 n n 
C2 N3 IMD doub 293 n y 
C2 H2 IMD sing 294 n n 
N3 C4 IMD sing 295 n y 
N3 HN3 IMD sing 296 n n 
C4 C5 IMD doub 297 n y 
C4 H4 IMD sing 298 n n 
C5 H5 IMD sing 299 n n 
#
_atom_sites.entry_id                     3EJ8 
_atom_sites.fract_transf_matrix[1][1]    0.011126 
_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]    0.006635 
_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]    0.005234 
_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
E 2 HEC A 1 1901 1901 HEC HEC . 
F 3 H4B A 1 1902 1902 H4B H4B . 
G 4 ZN A 1 1903 1903 ZN ZN . 
H 5 IMD A 1 1904 1904 IMD IMD . 
I 2 HEC B 1 2901 2901 HEC HEC . 
J 3 H4B B 1 2902 2902 H4B H4B . 
K 5 IMD B 1 2904 2904 IMD IMD . 
L 2 HEC C 1 3901 3901 HEC HEC . 
M 3 H4B C 1 3902 3902 H4B H4B . 
N 4 ZN C 1 3903 3903 ZN ZN . 
O 5 IMD C 1 3904 3904 IMD IMD . 
P 2 HEC D 1 4901 4901 HEC HEC . 
Q 3 H4B D 1 4902 4902 H4B H4B . 
R 5 IMD D 1 4904 4904 IMD IMD . 
S 6 HOH A 1 5001 5001 HOH HOH . 
S 6 HOH A 2 5004 5004 HOH HOH . 
S 6 HOH A 3 5007 5007 HOH HOH . 
S 6 HOH A 4 5029 5029 HOH HOH . 
S 6 HOH A 5 5030 5030 HOH HOH . 
S 6 HOH A 6 5031 5031 HOH HOH . 
S 6 HOH A 7 5044 5044 HOH HOH . 
S 6 HOH A 8 5045 5045 HOH HOH . 
S 6 HOH A 9 5046 5046 HOH HOH . 
S 6 HOH A 10 5047 5047 HOH HOH . 
S 6 HOH A 11 5048 5048 HOH HOH . 
S 6 HOH A 12 5055 5055 HOH HOH . 
S 6 HOH A 13 5056 5056 HOH HOH . 
S 6 HOH A 14 5061 5061 HOH HOH . 
S 6 HOH A 15 5063 5063 HOH HOH . 
S 6 HOH A 16 5069 5069 HOH HOH . 
S 6 HOH A 17 5070 5070 HOH HOH . 
S 6 HOH A 18 5073 5073 HOH HOH . 
S 6 HOH A 19 5074 5074 HOH HOH . 
S 6 HOH A 20 5077 5077 HOH HOH . 
S 6 HOH A 21 5078 5078 HOH HOH . 
S 6 HOH A 22 5079 5079 HOH HOH . 
S 6 HOH A 23 5080 5080 HOH HOH . 
S 6 HOH A 24 5081 5081 HOH HOH . 
S 6 HOH A 25 5082 5082 HOH HOH . 
S 6 HOH A 26 5083 5083 HOH HOH . 
S 6 HOH A 27 5108 5108 HOH HOH . 
S 6 HOH A 28 5115 5115 HOH HOH . 
S 6 HOH A 29 5119 5119 HOH HOH . 
S 6 HOH A 30 5121 5121 HOH HOH . 
S 6 HOH A 31 5122 5122 HOH HOH . 
S 6 HOH A 32 5123 5123 HOH HOH . 
S 6 HOH A 33 5124 5124 HOH HOH . 
S 6 HOH A 34 5125 5125 HOH HOH . 
S 6 HOH A 35 5126 5126 HOH HOH . 
S 6 HOH A 36 5127 5127 HOH HOH . 
S 6 HOH A 37 5128 5128 HOH HOH . 
S 6 HOH A 38 5129 5129 HOH HOH . 
S 6 HOH A 39 5130 5130 HOH HOH . 
S 6 HOH A 40 5131 5131 HOH HOH . 
S 6 HOH A 41 5132 5132 HOH HOH . 
S 6 HOH A 42 5133 5133 HOH HOH . 
S 6 HOH A 43 5134 5134 HOH HOH . 
S 6 HOH A 44 5135 5135 HOH HOH . 
S 6 HOH A 45 5136 5136 HOH HOH . 
S 6 HOH A 46 5138 5138 HOH HOH . 
S 6 HOH A 47 5167 5167 HOH HOH . 
S 6 HOH A 48 5179 5179 HOH HOH . 
S 6 HOH A 49 5183 5183 HOH HOH . 
T 6 HOH B 1 5005 5005 HOH HOH . 
T 6 HOH B 2 5008 5008 HOH HOH . 
T 6 HOH B 3 5010 5010 HOH HOH . 
T 6 HOH B 4 5012 5012 HOH HOH . 
T 6 HOH B 5 5013 5013 HOH HOH . 
T 6 HOH B 6 5018 5018 HOH HOH . 
T 6 HOH B 7 5019 5019 HOH HOH . 
T 6 HOH B 8 5021 5021 HOH HOH . 
T 6 HOH B 9 5022 5022 HOH HOH . 
T 6 HOH B 10 5033 5033 HOH HOH . 
T 6 HOH B 11 5034 5034 HOH HOH . 
T 6 HOH B 12 5038 5038 HOH HOH . 
T 6 HOH B 13 5041 5041 HOH HOH . 
T 6 HOH B 14 5049 5049 HOH HOH . 
T 6 HOH B 15 5053 5053 HOH HOH . 
T 6 HOH B 16 5060 5060 HOH HOH . 
T 6 HOH B 17 5084 5084 HOH HOH . 
T 6 HOH B 18 5085 5085 HOH HOH . 
T 6 HOH B 19 5086 5086 HOH HOH . 
T 6 HOH B 20 5087 5087 HOH HOH . 
T 6 HOH B 21 5088 5088 HOH HOH . 
T 6 HOH B 22 5089 5089 HOH HOH . 
T 6 HOH B 23 5109 5109 HOH HOH . 
T 6 HOH B 24 5112 5112 HOH HOH . 
T 6 HOH B 25 5114 5114 HOH HOH . 
T 6 HOH B 26 5137 5137 HOH HOH . 
T 6 HOH B 27 5139 5139 HOH HOH . 
T 6 HOH B 28 5140 5140 HOH HOH . 
T 6 HOH B 29 5141 5141 HOH HOH . 
T 6 HOH B 30 5142 5142 HOH HOH . 
T 6 HOH B 31 5143 5143 HOH HOH . 
T 6 HOH B 32 5144 5144 HOH HOH . 
T 6 HOH B 33 5145 5145 HOH HOH . 
T 6 HOH B 34 5169 5169 HOH HOH . 
T 6 HOH B 35 5171 5171 HOH HOH . 
T 6 HOH B 36 5172 5172 HOH HOH . 
T 6 HOH B 37 5177 5177 HOH HOH . 
T 6 HOH B 38 5178 5178 HOH HOH . 
T 6 HOH B 39 5182 5182 HOH HOH . 
T 6 HOH B 40 5184 5184 HOH HOH . 
T 6 HOH B 41 5185 5185 HOH HOH . 
T 6 HOH B 42 5186 5186 HOH HOH . 
T 6 HOH B 43 5187 5187 HOH HOH . 
T 6 HOH B 44 5188 5188 HOH HOH . 
T 6 HOH B 45 5189 5189 HOH HOH . 
T 6 HOH B 46 5190 5190 HOH HOH . 
U 6 HOH C 1 5002 5002 HOH HOH . 
U 6 HOH C 2 5003 5003 HOH HOH . 
U 6 HOH C 3 5011 5011 HOH HOH . 
U 6 HOH C 4 5015 5015 HOH HOH . 
U 6 HOH C 5 5016 5016 HOH HOH . 
U 6 HOH C 6 5020 5020 HOH HOH . 
U 6 HOH C 7 5023 5023 HOH HOH . 
U 6 HOH C 8 5024 5024 HOH HOH . 
U 6 HOH C 9 5027 5027 HOH HOH . 
U 6 HOH C 10 5028 5028 HOH HOH . 
U 6 HOH C 11 5032 5032 HOH HOH . 
U 6 HOH C 12 5051 5051 HOH HOH . 
U 6 HOH C 13 5052 5052 HOH HOH . 
U 6 HOH C 14 5054 5054 HOH HOH . 
U 6 HOH C 15 5057 5057 HOH HOH . 
U 6 HOH C 16 5058 5058 HOH HOH . 
U 6 HOH C 17 5059 5059 HOH HOH . 
U 6 HOH C 18 5064 5064 HOH HOH . 
U 6 HOH C 19 5065 5065 HOH HOH . 
U 6 HOH C 20 5066 5066 HOH HOH . 
U 6 HOH C 21 5067 5067 HOH HOH . 
U 6 HOH C 22 5090 5090 HOH HOH . 
U 6 HOH C 23 5092 5092 HOH HOH . 
U 6 HOH C 24 5093 5093 HOH HOH . 
U 6 HOH C 25 5094 5094 HOH HOH . 
U 6 HOH C 26 5113 5113 HOH HOH . 
U 6 HOH C 27 5116 5116 HOH HOH . 
U 6 HOH C 28 5117 5117 HOH HOH . 
U 6 HOH C 29 5118 5118 HOH HOH . 
U 6 HOH C 30 5146 5146 HOH HOH . 
U 6 HOH C 31 5147 5147 HOH HOH . 
U 6 HOH C 32 5148 5148 HOH HOH . 
U 6 HOH C 33 5149 5149 HOH HOH . 
U 6 HOH C 34 5150 5150 HOH HOH . 
U 6 HOH C 35 5151 5151 HOH HOH . 
U 6 HOH C 36 5152 5152 HOH HOH . 
U 6 HOH C 37 5153 5153 HOH HOH . 
U 6 HOH C 38 5165 5165 HOH HOH . 
U 6 HOH C 39 5174 5174 HOH HOH . 
U 6 HOH C 40 5175 5175 HOH HOH . 
U 6 HOH C 41 5176 5176 HOH HOH . 
U 6 HOH C 42 5180 5180 HOH HOH . 
U 6 HOH C 43 5191 5191 HOH HOH . 
U 6 HOH C 44 5192 5192 HOH HOH . 
U 6 HOH C 45 5193 5193 HOH HOH . 
V 6 HOH D 1 5006 5006 HOH HOH . 
V 6 HOH D 2 5009 5009 HOH HOH . 
V 6 HOH D 3 5014 5014 HOH HOH . 
V 6 HOH D 4 5017 5017 HOH HOH . 
V 6 HOH D 5 5025 5025 HOH HOH . 
V 6 HOH D 6 5026 5026 HOH HOH . 
V 6 HOH D 7 5035 5035 HOH HOH . 
V 6 HOH D 8 5036 5036 HOH HOH . 
V 6 HOH D 9 5037 5037 HOH HOH . 
V 6 HOH D 10 5039 5039 HOH HOH . 
V 6 HOH D 11 5040 5040 HOH HOH . 
V 6 HOH D 12 5042 5042 HOH HOH . 
V 6 HOH D 13 5043 5043 HOH HOH . 
V 6 HOH D 14 5050 5050 HOH HOH . 
V 6 HOH D 15 5062 5062 HOH HOH . 
V 6 HOH D 16 5068 5068 HOH HOH . 
V 6 HOH D 17 5071 5071 HOH HOH . 
V 6 HOH D 18 5072 5072 HOH HOH . 
V 6 HOH D 19 5075 5075 HOH HOH . 
V 6 HOH D 20 5076 5076 HOH HOH . 
V 6 HOH D 21 5091 5091 HOH HOH . 
V 6 HOH D 22 5095 5095 HOH HOH . 
V 6 HOH D 23 5096 5096 HOH HOH . 
V 6 HOH D 24 5097 5097 HOH HOH . 
V 6 HOH D 25 5098 5098 HOH HOH . 
V 6 HOH D 26 5099 5099 HOH HOH . 
V 6 HOH D 27 5100 5100 HOH HOH . 
V 6 HOH D 28 5101 5101 HOH HOH . 
V 6 HOH D 29 5102 5102 HOH HOH . 
V 6 HOH D 30 5103 5103 HOH HOH . 
V 6 HOH D 31 5104 5104 HOH HOH . 
V 6 HOH D 32 5105 5105 HOH HOH . 
V 6 HOH D 33 5106 5106 HOH HOH . 
V 6 HOH D 34 5107 5107 HOH HOH . 
V 6 HOH D 35 5110 5110 HOH HOH . 
V 6 HOH D 36 5111 5111 HOH HOH . 
V 6 HOH D 37 5120 5120 HOH HOH . 
V 6 HOH D 38 5154 5154 HOH HOH . 
V 6 HOH D 39 5155 5155 HOH HOH . 
V 6 HOH D 40 5156 5156 HOH HOH . 
V 6 HOH D 41 5157 5157 HOH HOH . 
V 6 HOH D 42 5158 5158 HOH HOH . 
V 6 HOH D 43 5159 5159 HOH HOH . 
V 6 HOH D 44 5160 5160 HOH HOH . 
V 6 HOH D 45 5161 5161 HOH HOH . 
V 6 HOH D 46 5162 5162 HOH HOH . 
V 6 HOH D 47 5163 5163 HOH HOH . 
V 6 HOH D 48 5164 5164 HOH HOH . 
V 6 HOH D 49 5166 5166 HOH HOH . 
V 6 HOH D 50 5168 5168 HOH HOH . 
V 6 HOH D 51 5170 5170 HOH HOH . 
V 6 HOH D 52 5181 5181 HOH HOH . 
V 6 HOH D 53 5194 5194 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 N N1 IMD . . . R 5 36.28 35.198 29.145 1 90.42 ? N1 IMD 4904 D 1 
HETATM 2 C C2 IMD . . . R 5 36.314 36.491 29.417 1 81.62 ? C2 IMD 4904 D 1 
HETATM 3 N N3 IMD . . . R 5 37.091 37.122 28.492 1 87.19 ? N3 IMD 4904 D 1 
HETATM 4 C C4 IMD . . . R 5 37.556 36.174 27.613 1 84.87 ? C4 IMD 4904 D 1 
HETATM 5 C C5 IMD . . . R 5 37.074 34.971 27.985 1 85.94 ? C5 IMD 4904 D 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           5 
#