data_8V8D # _model_server_result.job_id vfCdoSnE8gGp9j_sbFG21Q _model_server_result.datetime_utc '2024-10-26 02:31:58' _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 8v8d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":605}' # _entry.id 8V8D # _exptl.entry_id 8V8D _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 208.687 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description EPIBATIDINE _entity.pdbx_number_of_molecules 5 _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 8V8D _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8V8D _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA _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 ? _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 ? 4 M N N ? 4 S N N ? 4 X N N ? 4 CA N N ? 4 GA N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n F NAG 1 F 1 NAG A 513 NAG 2 n F NAG 2 F 2 NAG A 514 NAG 2 n G NAG 1 G 1 NAG B 513 NAG 2 n G NAG 2 G 2 NAG B 514 NAG 2 n H NAG 1 H 1 NAG C 513 NAG 2 n H NAG 2 H 2 NAG C 514 NAG 2 n I NAG 1 I 1 NAG D 513 NAG 2 n I NAG 2 I 2 NAG D 514 NAG 2 n J NAG 1 J 1 NAG E 513 NAG 2 n J NAG 2 J 2 NAG E 514 NAG # 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 127 A CYS 127 1_555 A SG CYS 141 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 189 A CYS 189 1_555 A SG CYS 190 A CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 B SG CYS 127 B CYS 127 1_555 B SG CYS 141 B CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 189 B CYS 189 1_555 B SG CYS 190 B CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf5 C SG CYS 127 C CYS 127 1_555 C SG CYS 141 C CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 C SG CYS 189 C CYS 189 1_555 C SG CYS 190 C CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf7 D SG CYS 127 D CYS 127 1_555 D SG CYS 141 D CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf8 D SG CYS 189 D CYS 189 1_555 D SG CYS 190 D CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf9 E SG CYS 127 E CYS 127 1_555 E SG CYS 141 E CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 E SG CYS 189 E CYS 189 1_555 E SG CYS 190 E CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? covale ? covale1 A ND2 ASN 23 A ASN 23 1_555 L C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 67 A ASN 67 1_555 K C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 110 A ASN 110 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 B ND2 ASN 23 B ASN 23 1_555 R C1 NAG . B NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B ND2 ASN 67 B ASN 67 1_555 Q C1 NAG . B NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 B ND2 ASN 110 B ASN 110 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 C ND2 ASN 23 C ASN 23 1_555 W C1 NAG . C NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 C ND2 ASN 67 C ASN 67 1_555 V C1 NAG . C NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 C ND2 ASN 110 C ASN 110 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale10 D ND2 ASN 23 D ASN 23 1_555 BA C1 NAG . D NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 D ND2 ASN 67 D ASN 67 1_555 AA C1 NAG . D NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale12 D ND2 ASN 110 D ASN 110 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 E ND2 ASN 23 E ASN 23 1_555 FA C1 NAG . E NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 E ND2 ASN 67 E ASN 67 1_555 EA C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale15 E ND2 ASN 110 E ASN 110 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale16 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale17 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale18 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale19 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale20 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 B O VAL 42 B VAL 42 1_555 P CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc2 B OE1 GLU 44 B GLU 44 1_555 P CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.814 ? metalc ? metalc3 B OE2 GLU 44 B GLU 44 1_555 P CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.189 ? metalc ? metalc4 C OE2 GLU 172 C GLU 172 1_555 U CA CA . C CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.914 ? metalc ? metalc5 C OH TYR 210 C TYR 210 1_555 U CA CA . C CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.052 ? metalc ? metalc6 D OE1 GLU 44 D GLU 44 1_555 Z CA CA . D CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? metalc ? metalc7 D OE2 GLU 44 D GLU 44 1_555 Z CA CA . D CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? # _chem_comp.formula 'C11 H13 Cl N2' _chem_comp.formula_weight 208.687 _chem_comp.id EPJ _chem_comp.mon_nstd_flag . _chem_comp.name EPIBATIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (2R)-2-(6-CHLOROPYRIDIN-3-YL)-7-AZABICYCLO[2.2.1]HEPTANE # 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 EPJ sing 83 n n C1 C6 EPJ sing 84 n n C1 C7 EPJ sing 85 n n C1 H1 EPJ sing 86 n n C2 C3 EPJ sing 87 n n C2 H2C1 EPJ sing 88 n n C2 H2C2 EPJ sing 89 n n C3 C4 EPJ sing 90 n n C3 N1 EPJ sing 91 n n C3 H3 EPJ sing 92 n n C4 C5 EPJ sing 93 n n C4 H4C1 EPJ sing 94 n n C4 H4C2 EPJ sing 95 n n C5 C6 EPJ sing 96 n n C5 H5C1 EPJ sing 97 n n C5 H5C2 EPJ sing 98 n n C6 N1 EPJ sing 99 n n C6 H6 EPJ sing 100 n n N1 HA EPJ sing 101 n n C7 C8 EPJ doub 102 n y C7 C11 EPJ sing 103 n y C8 C9 EPJ sing 104 n y C8 H8 EPJ sing 105 n n C9 C10 EPJ doub 106 n y C9 H9 EPJ sing 107 n n C10 CL EPJ sing 108 n n C10 N2 EPJ sing 109 n y N2 C11 EPJ doub 110 n y C11 H11 EPJ sing 111 n n # _atom_sites.entry_id 8V8D _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 K 3 NAG A 1 601 512 NAG NAG . L 3 NAG A 1 602 510 NAG NAG . M 4 EPJ A 1 603 609 EPJ EPJ . N 5 I34 A 1 604 600 I34 I34 . O 5 I34 B 1 601 600 I34 I34 . P 6 CA B 1 602 504 CA CA . Q 3 NAG B 1 603 512 NAG NAG . R 3 NAG B 1 604 510 NAG NAG . S 4 EPJ B 1 605 609 EPJ EPJ . T 5 I34 C 1 601 600 I34 I34 . U 6 CA C 1 602 504 CA CA . V 3 NAG C 1 603 512 NAG NAG . W 3 NAG C 1 604 510 NAG NAG . X 4 EPJ C 1 605 609 EPJ EPJ . Y 5 I34 D 1 601 600 I34 I34 . Z 6 CA D 1 602 504 CA CA . AA 3 NAG D 1 603 512 NAG NAG . BA 3 NAG D 1 604 510 NAG NAG . CA 4 EPJ D 1 605 609 EPJ EPJ . DA 5 I34 D 1 606 600 I34 I34 . EA 3 NAG E 1 601 512 NAG NAG . FA 3 NAG E 1 602 510 NAG NAG . GA 4 EPJ E 1 603 609 EPJ EPJ . # 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 EPJ . . . S 4 116.634 151.017 170.092 1 99.59 ? C1 EPJ 605 B 1 HETATM 2 C C2 EPJ . . . S 4 115.935 152.384 170.294 1 99.59 ? C2 EPJ 605 B 1 HETATM 3 C C3 EPJ . . . S 4 116.68 153.243 169.275 1 99.59 ? C3 EPJ 605 B 1 HETATM 4 C C4 EPJ . . . S 4 116.363 152.749 167.869 1 99.59 ? C4 EPJ 605 B 1 HETATM 5 C C5 EPJ . . . S 4 117.259 151.517 167.713 1 99.59 ? C5 EPJ 605 B 1 HETATM 6 C C6 EPJ . . . S 4 117.804 151.374 169.137 1 99.59 ? C6 EPJ 605 B 1 HETATM 7 N N1 EPJ . . . S 4 118.063 152.788 169.477 1 99.59 ? N1 EPJ 605 B 1 HETATM 8 C C7 EPJ . . . S 4 116.984 150.261 171.364 1 99.59 ? C7 EPJ 605 B 1 HETATM 9 C C8 EPJ . . . S 4 116.196 150.357 172.5 1 99.59 ? C8 EPJ 605 B 1 HETATM 10 C C9 EPJ . . . S 4 116.525 149.664 173.649 1 99.59 ? C9 EPJ 605 B 1 HETATM 11 C C10 EPJ . . . S 4 117.653 148.877 173.602 1 99.59 ? C10 EPJ 605 B 1 HETATM 12 CL CL EPJ . . . S 4 118.12 147.983 175.019 1 99.59 ? CL EPJ 605 B 1 HETATM 13 N N2 EPJ . . . S 4 118.438 148.739 172.549 1 99.59 ? N2 EPJ 605 B 1 HETATM 14 C C11 EPJ . . . S 4 118.089 149.427 171.452 1 99.59 ? C11 EPJ 605 B 1 HETATM 15 H H1 EPJ . . . S 4 115.98 150.261 169.66 1 99.59 ? H1 EPJ 605 B 1 HETATM 16 H H2C1 EPJ . . . S 4 116.048 152.759 171.31 1 99.59 ? H2C1 EPJ 605 B 1 HETATM 17 H H2C2 EPJ . . . S 4 114.867 152.335 170.089 1 99.59 ? H2C2 EPJ 605 B 1 HETATM 18 H H3 EPJ . . . S 4 116.463 154.305 169.38 1 99.59 ? H3 EPJ 605 B 1 HETATM 19 H H4C1 EPJ . . . S 4 116.587 153.505 167.118 1 99.59 ? H4C1 EPJ 605 B 1 HETATM 20 H H4C2 EPJ . . . S 4 115.31 152.495 167.761 1 99.59 ? H4C2 EPJ 605 B 1 HETATM 21 H H5C1 EPJ . . . S 4 116.7 150.638 167.395 1 99.59 ? H5C1 EPJ 605 B 1 HETATM 22 H H5C2 EPJ . . . S 4 118.051 151.673 166.982 1 99.59 ? H5C2 EPJ 605 B 1 HETATM 23 H H6 EPJ . . . S 4 118.62 150.657 169.211 1 99.59 ? H6 EPJ 605 B 1 HETATM 24 H HA EPJ . . . S 4 118.908 153.278 169.755 1 99.59 ? HA EPJ 605 B 1 HETATM 25 H H8 EPJ . . . S 4 115.313 150.982 172.487 1 99.59 ? H8 EPJ 605 B 1 HETATM 26 H H9 EPJ . . . S 4 115.923 149.737 174.545 1 99.59 ? H9 EPJ 605 B 1 HETATM 27 H H11 EPJ . . . S 4 118.713 149.324 170.574 1 99.59 ? H11 EPJ 605 B 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 162 _model_server_stats.query_time_ms 509 _model_server_stats.encode_time_ms 49 _model_server_stats.element_count 27 #