data_3N7R # _model_server_result.job_id pRUK7h2LVngeeXwqjrhsvQ _model_server_result.datetime_utc '2024-12-22 06:08:46' _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 3n7r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1}' # _entry.id 3N7R # _exptl.entry_id 3N7R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 869.645 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-{(1S)-5-amino-1-[(4-pyridin-4-ylpiperazin-1-yl)carbonyl]pentyl}-3,5-dibromo-Nalpha-{[4-(2-oxo-1,4-dihydroquinazolin-3 (2H)-yl)piperidin-1-yl]carbonyl}-D-tyrosinamide' _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 90 _cell.angle_gamma 90 _cell.entry_id 3N7R _cell.length_a 77.94 _cell.length_b 118.2 _cell.length_c 133.26 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N7R _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,G,J 1 1 B,C,F,H,I 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _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 30 A CYS 48 1_555 A SG CYS 56 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf2 A SG CYS 47 A CYS 65 1_555 A SG CYS 87 A CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 70 A CYS 88 1_555 A SG CYS 109 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 B SG CYS 30 B CYS 48 1_555 B SG CYS 56 B CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 B SG CYS 47 B CYS 65 1_555 B SG CYS 87 B CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf6 B SG CYS 70 B CYS 88 1_555 B SG CYS 109 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf7 C SG CYS 6 C CYS 27 1_555 C SG CYS 61 C CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf8 C SG CYS 19 C CYS 40 1_555 C SG CYS 51 C CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 C SG CYS 36 C CYS 57 1_555 C SG CYS 83 C CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf10 D SG CYS 6 D CYS 27 1_555 D SG CYS 61 D CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf11 D SG CYS 19 D CYS 40 1_555 D SG CYS 51 D CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf12 D SG CYS 36 D CYS 57 1_555 D SG CYS 83 D CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? # _chem_comp.formula 'C38 H47 Br2 N9 O5' _chem_comp.formula_weight 869.645 _chem_comp.id 3N6 _chem_comp.mon_nstd_flag . _chem_comp.name 'N-{(1S)-5-amino-1-[(4-pyridin-4-ylpiperazin-1-yl)carbonyl]pentyl}-3,5-dibromo-Nalpha-{[4-(2-oxo-1,4-dihydroquinazolin-3 (2H)-yl)piperidin-1-yl]carbonyl}-D-tyrosinamide' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Olcegepant # 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 3N6 sing 1 n n N1 HN1 3N6 sing 2 n n N1 HN1A 3N6 sing 3 n n C2 C3 3N6 sing 4 n n C2 H2 3N6 sing 5 n n C2 H2A 3N6 sing 6 n n C3 C4 3N6 sing 7 n n C3 H3 3N6 sing 8 n n C3 H3A 3N6 sing 9 n n C4 C5 3N6 sing 10 n n C4 H4 3N6 sing 11 n n C4 H4A 3N6 sing 12 n n C5 C6 3N6 sing 13 n n C5 H5 3N6 sing 14 n n C5 H5A 3N6 sing 15 n n N8 C6 3N6 sing 16 n n C6 C43 3N6 sing 17 n n C6 H6 3N6 sing 18 n n C9 N8 3N6 sing 19 n n N8 HN8 3N6 sing 20 n n C11 C9 3N6 sing 21 n n C9 O10 3N6 doub 22 n n C13 C11 3N6 sing 23 n n C11 N23 3N6 sing 24 n n C11 H11 3N6 sing 25 n n C14 C13 3N6 sing 26 n n C13 H13 3N6 sing 27 n n C13 H13A 3N6 sing 28 n n C15 C14 3N6 doub 29 n y C14 C22 3N6 sing 30 n y C16 C15 3N6 sing 31 n y C15 H15 3N6 sing 32 n n BR17 C16 3N6 sing 33 n n C16 C18 3N6 doub 34 n y O19 C18 3N6 sing 35 n n C18 C20 3N6 sing 36 n y O19 HO19 3N6 sing 37 n n C20 C22 3N6 doub 38 n y C20 BR21 3N6 sing 39 n n C22 H22 3N6 sing 40 n n N23 C24 3N6 sing 41 n n N23 HN23 3N6 sing 42 n n O25 C24 3N6 doub 43 n n C24 N26 3N6 sing 44 n n N26 C27 3N6 sing 45 n n N26 C31 3N6 sing 46 n n C27 C28 3N6 sing 47 n n C27 H27 3N6 sing 48 n n C27 H27A 3N6 sing 49 n n C28 C29 3N6 sing 50 n n C28 H28 3N6 sing 51 n n C28 H28A 3N6 sing 52 n n C29 C30 3N6 sing 53 n n C29 N32 3N6 sing 54 n n C29 H29 3N6 sing 55 n n C31 C30 3N6 sing 56 n n C30 H30 3N6 sing 57 n n C30 H30A 3N6 sing 58 n n C31 H31 3N6 sing 59 n n C31 H31A 3N6 sing 60 n n N32 C41 3N6 sing 61 n n N32 C33 3N6 sing 62 n n C33 C34 3N6 sing 63 n n C33 H33 3N6 sing 64 n n C33 H33A 3N6 sing 65 n n C39 C34 3N6 doub 66 n y C34 C35 3N6 sing 67 n y C35 C36 3N6 doub 68 n y C35 H35 3N6 sing 69 n n C37 C36 3N6 sing 70 n y C36 H36 3N6 sing 71 n n C38 C37 3N6 doub 72 n y C37 H37 3N6 sing 73 n n C39 C38 3N6 sing 74 n y C38 H38 3N6 sing 75 n n N40 C39 3N6 sing 76 n n C41 N40 3N6 sing 77 n n N40 HN40 3N6 sing 78 n n O42 C41 3N6 doub 79 n n O44 C43 3N6 doub 80 n n C43 N45 3N6 sing 81 n n N45 C46 3N6 sing 82 n n N45 C50 3N6 sing 83 n n C46 C47 3N6 sing 84 n n C46 H46 3N6 sing 85 n n C46 H46A 3N6 sing 86 n n C47 N48 3N6 sing 87 n n C47 H47 3N6 sing 88 n n C47 H47A 3N6 sing 89 n n C49 N48 3N6 sing 90 n n N48 C51 3N6 sing 91 n n C50 C49 3N6 sing 92 n n C49 H49 3N6 sing 93 n n C49 H49A 3N6 sing 94 n n C50 H50 3N6 sing 95 n n C50 H50A 3N6 sing 96 n n C51 C52 3N6 doub 97 n y C51 C56 3N6 sing 98 n y C52 C53 3N6 sing 99 n y C52 H52 3N6 sing 100 n n C53 N54 3N6 doub 101 n y C53 H53 3N6 sing 102 n n C55 N54 3N6 sing 103 n y C56 C55 3N6 doub 104 n y C55 H55 3N6 sing 105 n n C56 H56 3N6 sing 106 n n # _atom_sites.entry_id 3N7R _atom_sites.fract_transf_matrix[1][1] 0.01283 _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] 0.00846 _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] 0.007504 _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 3 3N6 A 1 1 1 3N6 3N6 . F 4 N7R B 1 1 1 N7R N7R . G 5 HOH A 1 200 200 HOH HOH . G 5 HOH A 2 201 201 HOH HOH . G 5 HOH A 3 202 202 HOH HOH . G 5 HOH A 4 203 203 HOH HOH . G 5 HOH A 5 204 204 HOH HOH . G 5 HOH A 6 205 205 HOH HOH . G 5 HOH A 7 206 206 HOH HOH . G 5 HOH A 8 207 207 HOH HOH . G 5 HOH A 9 208 208 HOH HOH . G 5 HOH A 10 209 209 HOH HOH . G 5 HOH A 11 210 210 HOH HOH . H 5 HOH B 1 200 200 HOH HOH . H 5 HOH B 2 201 201 HOH HOH . H 5 HOH B 3 202 202 HOH HOH . H 5 HOH B 4 203 203 HOH HOH . H 5 HOH B 5 204 204 HOH HOH . H 5 HOH B 6 205 205 HOH HOH . H 5 HOH B 7 206 206 HOH HOH . H 5 HOH B 8 207 207 HOH HOH . H 5 HOH B 9 208 208 HOH HOH . H 5 HOH B 10 209 209 HOH HOH . H 5 HOH B 11 210 210 HOH HOH . I 5 HOH C 1 200 200 HOH HOH . I 5 HOH C 2 201 201 HOH HOH . I 5 HOH C 3 202 202 HOH HOH . I 5 HOH C 4 203 203 HOH HOH . I 5 HOH C 5 204 204 HOH HOH . I 5 HOH C 6 205 205 HOH HOH . J 5 HOH D 1 200 200 HOH HOH . J 5 HOH D 2 201 201 HOH HOH . J 5 HOH D 3 202 202 HOH HOH . J 5 HOH D 4 203 203 HOH HOH . J 5 HOH D 5 204 204 HOH HOH . J 5 HOH D 6 205 205 HOH HOH . J 5 HOH D 7 206 206 HOH HOH . J 5 HOH D 8 207 207 HOH HOH . J 5 HOH D 9 208 208 HOH HOH . J 5 HOH D 10 209 209 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 3N6 . . . E 3 20.246 13.915 66.315 1 74.43 ? N1 3N6 1 A 1 HETATM 2 C C2 3N6 . . . E 3 20.942 15.085 66.822 1 75.46 ? C2 3N6 1 A 1 HETATM 3 C C3 3N6 . . . E 3 21.132 15 68.331 1 76.53 ? C3 3N6 1 A 1 HETATM 4 C C4 3N6 . . . E 3 20.587 16.334 68.947 1 78.24 ? C4 3N6 1 A 1 HETATM 5 C C5 3N6 . . . E 3 21.456 16.746 70.111 1 81.47 ? C5 3N6 1 A 1 HETATM 6 C C6 3N6 . . . E 3 21.237 18.135 70.377 1 84.83 ? C6 3N6 1 A 1 HETATM 7 N N8 3N6 . . . E 3 21.588 18.96 69.168 1 84.18 ? N8 3N6 1 A 1 HETATM 8 C C9 3N6 . . . E 3 21.307 20.32 69.054 1 83.11 ? C9 3N6 1 A 1 HETATM 9 O O10 3N6 . . . E 3 20.733 20.922 69.959 1 83.47 ? O10 3N6 1 A 1 HETATM 10 C C11 3N6 . . . E 3 21.679 21.044 67.796 1 81.47 ? C11 3N6 1 A 1 HETATM 11 C C13 3N6 . . . E 3 20.434 21.311 67.033 1 81.53 ? C13 3N6 1 A 1 HETATM 12 C C14 3N6 . . . E 3 19.713 20.013 66.703 1 82.79 ? C14 3N6 1 A 1 HETATM 13 C C15 3N6 . . . E 3 20.133 19.34 65.498 1 81.51 ? C15 3N6 1 A 1 HETATM 14 C C16 3N6 . . . E 3 19.548 18.151 65.154 1 79.98 ? C16 3N6 1 A 1 HETATM 15 BR BR17 3N6 . . . E 3 20.067 17.329 63.625 0.69 77.07 ? BR17 3N6 1 A 1 HETATM 16 C C18 3N6 . . . E 3 18.549 17.563 65.918 1 83.3 ? C18 3N6 1 A 1 HETATM 17 O O19 3N6 . . . E 3 17.963 16.376 65.559 1 83.75 ? O19 3N6 1 A 1 HETATM 18 C C20 3N6 . . . E 3 18.155 18.268 67.15 1 86.55 ? C20 3N6 1 A 1 HETATM 19 BR BR21 3N6 . . . E 3 16.838 17.505 68.172 0.69 90.65 ? BR21 3N6 1 A 1 HETATM 20 C C22 3N6 . . . E 3 18.674 19.482 67.612 1 84.5 ? C22 3N6 1 A 1 HETATM 21 N N23 3N6 . . . E 3 22.317 22.285 68.217 1 80.75 ? N23 3N6 1 A 1 HETATM 22 C C24 3N6 . . . E 3 23.655 22.422 68.241 1 80.35 ? C24 3N6 1 A 1 HETATM 23 O O25 3N6 . . . E 3 24.282 21.426 67.944 1 83.52 ? O25 3N6 1 A 1 HETATM 24 N N26 3N6 . . . E 3 24.261 23.611 68.586 1 76.45 ? N26 3N6 1 A 1 HETATM 25 C C27 3N6 . . . E 3 25.666 23.728 68.603 1 75.14 ? C27 3N6 1 A 1 HETATM 26 C C28 3N6 . . . E 3 26.138 24.291 69.886 1 76.23 ? C28 3N6 1 A 1 HETATM 27 C C29 3N6 . . . E 3 25.412 25.514 70.256 1 78.13 ? C29 3N6 1 A 1 HETATM 28 C C30 3N6 . . . E 3 23.919 25.228 70.318 1 76.47 ? C30 3N6 1 A 1 HETATM 29 C C31 3N6 . . . E 3 23.486 24.761 68.947 1 76.12 ? C31 3N6 1 A 1 HETATM 30 N N32 3N6 . . . E 3 25.845 26.048 71.575 1 82.24 ? N32 3N6 1 A 1 HETATM 31 C C33 3N6 . . . E 3 25.335 25.441 72.827 1 84.71 ? C33 3N6 1 A 1 HETATM 32 C C34 3N6 . . . E 3 25.834 26.06 74.084 1 87.22 ? C34 3N6 1 A 1 HETATM 33 C C35 3N6 . . . E 3 25.408 25.598 75.354 1 88.75 ? C35 3N6 1 A 1 HETATM 34 C C36 3N6 . . . E 3 25.955 26.272 76.497 1 89.68 ? C36 3N6 1 A 1 HETATM 35 C C37 3N6 . . . E 3 26.921 27.405 76.435 1 88.7 ? C37 3N6 1 A 1 HETATM 36 C C38 3N6 . . . E 3 27.299 27.823 75.197 1 87.69 ? C38 3N6 1 A 1 HETATM 37 C C39 3N6 . . . E 3 26.787 27.186 73.978 1 87.67 ? C39 3N6 1 A 1 HETATM 38 N N40 3N6 . . . E 3 27.199 27.65 72.708 1 86.72 ? N40 3N6 1 A 1 HETATM 39 C C41 3N6 . . . E 3 26.741 27.099 71.605 1 84.23 ? C41 3N6 1 A 1 HETATM 40 O O42 3N6 . . . E 3 27.169 27.596 70.535 1 83.81 ? O42 3N6 1 A 1 HETATM 41 C C43 3N6 . . . E 3 22.139 18.651 71.453 1 88.74 ? C43 3N6 1 A 1 HETATM 42 O O44 3N6 . . . E 3 23.315 19.158 71.202 1 89.56 ? O44 3N6 1 A 1 HETATM 43 N N45 3N6 . . . E 3 21.651 18.574 72.685 1 90.63 ? N45 3N6 1 A 1 HETATM 44 C C46 3N6 . . . E 3 20.266 17.967 72.948 1 91.18 ? C46 3N6 1 A 1 HETATM 45 C C47 3N6 . . . E 3 19.606 18.929 73.95 1 92.31 ? C47 3N6 1 A 1 HETATM 46 N N48 3N6 . . . E 3 20.543 19.262 75.057 1 93.33 ? N48 3N6 1 A 1 HETATM 47 C C49 3N6 . . . E 3 21.745 20.037 74.626 1 92.06 ? C49 3N6 1 A 1 HETATM 48 C C50 3N6 . . . E 3 22.563 19.126 73.763 1 91.16 ? C50 3N6 1 A 1 HETATM 49 C C51 3N6 . . . E 3 19.898 19.914 76.066 1 95.64 ? C51 3N6 1 A 1 HETATM 50 C C52 3N6 . . . E 3 20.464 21.276 76.499 1 96.42 ? C52 3N6 1 A 1 HETATM 51 C C53 3N6 . . . E 3 19.77 21.932 77.526 1 97.7 ? C53 3N6 1 A 1 HETATM 52 N N54 3N6 . . . E 3 18.587 21.314 78.105 1 98.52 ? N54 3N6 1 A 1 HETATM 53 C C55 3N6 . . . E 3 18.024 20.037 77.729 1 97.85 ? C55 3N6 1 A 1 HETATM 54 C C56 3N6 . . . E 3 18.661 19.271 76.67 1 96.62 ? C56 3N6 1 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 1339 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 54 #