data_6CNK # _model_server_result.job_id Rt3kbS3YVr4k5o2q2DmY4w _model_server_result.datetime_utc '2025-02-27 11:23:20' _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 6cnk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":402}' # _entry.id 6CNK # _exptl.entry_id 6CNK _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 162.232 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (S)-3-(1-METHYLPYRROLIDIN-2-YL)PYRIDINE _entity.pdbx_number_of_molecules 3 _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 6CNK _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CNK _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 nonameric _pdbx_struct_assembly.oligomeric_count 9 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 9 P N N ? 9 R N N ? 9 W N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . 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 5 n J NAG 1 H 1 NAG C 400 NAG 5 n J NAG 2 H 2 NAG C 401 NAG 5 n J BMA 3 H 3 BMA C 402 BMA 5 n K NAG 1 I 1 NAG E 400 NAG 5 n K NAG 2 I 2 NAG E 401 NAG 5 n K BMA 3 I 3 BMA E 402 BMA # 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 135 A CYS 135 1_555 A SG CYS 149 A CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 199 A CYS 199 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf3 B SG CYS 135 B CYS 135 1_555 B SG CYS 149 B CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 199 B CYS 199 1_555 B SG CYS 200 B CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 C SG CYS 130 C CYS 130 1_555 C SG CYS 144 C CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 D SG CYS 135 D CYS 135 1_555 D SG CYS 149 D CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 D SG CYS 199 D CYS 199 1_555 D SG CYS 200 D CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf8 E SG CYS 130 E CYS 130 1_555 E SG CYS 144 E CYS 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 F SG CYS 42 F CYS 23 1_555 F SG CYS 112 F CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 F SG CYS 158 F CYS 139 1_555 F SG CYS 218 F CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 G SG CYS 165 G CYS 147 1_555 G SG CYS 220 G CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 H SG CYS 42 J CYS 23 1_555 H SG CYS 112 J CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 H SG CYS 158 J CYS 139 1_555 H SG CYS 218 J CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 I SG CYS 165 K CYS 147 1_555 I SG CYS 220 K CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A ND2 ASN 148 A ASN 148 1_555 L C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 B ND2 ASN 148 B ASN 148 1_555 Q C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale3 C ND2 ASN 143 C ASN 143 1_555 J C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 D ND2 ASN 148 D ASN 148 1_555 X C1 NAG . D NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.489 ? covale ? covale5 E ND2 ASN 143 E ASN 143 1_555 K C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 J O4 NAG . H NAG 1 1_555 J C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 J O4 NAG . H NAG 2 1_555 J C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale8 K O4 NAG . I NAG 1 1_555 K C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 K O4 NAG . I NAG 2 1_555 K C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _chem_comp.formula 'C10 H14 N2' _chem_comp.formula_weight 162.232 _chem_comp.id NCT _chem_comp.mon_nstd_flag . _chem_comp.name (S)-3-(1-METHYLPYRROLIDIN-2-YL)PYRIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(S)-(-)-NICOTINE;3-[(2S)-1-METHYL-2-PYRROLIDINYL] PYRIDINE' # 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 C1 NCT doub 289 n y N1 C5 NCT sing 290 n y C1 C2 NCT sing 291 n y C1 HC1 NCT sing 292 n n C2 C3 NCT doub 293 n y C2 C6 NCT sing 294 n n C3 C4 NCT sing 295 n y C3 HC3 NCT sing 296 n n C4 C5 NCT doub 297 n y C4 HC4 NCT sing 298 n n C5 HC5 NCT sing 299 n n N2 C6 NCT sing 300 n n N2 C9 NCT sing 301 n n N2 C10 NCT sing 302 n n C6 C7 NCT sing 303 n n C6 HC6 NCT sing 304 n n C7 C8 NCT sing 305 n n C7 HC71 NCT sing 306 n n C7 HC72 NCT sing 307 n n C8 C9 NCT sing 308 n n C8 HC81 NCT sing 309 n n C8 HC82 NCT sing 310 n n C9 HC91 NCT sing 311 n n C9 HC92 NCT sing 312 n n C10 H101 NCT sing 313 n n C10 H102 NCT sing 314 n n C10 H103 NCT sing 315 n n # _atom_sites.entry_id 6CNK _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 L 6 NAG A 1 401 400 NAG NAG . M 7 Y01 A 1 402 6 Y01 Y01 . N 7 Y01 A 1 403 7 Y01 Y01 . O 8 NA A 1 404 1 NA NA . P 9 NCT A 1 405 402 NCT NCT . Q 6 NAG B 1 401 400 NAG NAG . R 9 NCT B 1 402 500 NCT NCT . S 7 Y01 B 1 403 1 Y01 Y01 . T 7 Y01 B 1 404 8 Y01 Y01 . U 7 Y01 C 1 501 2 Y01 Y01 . V 7 Y01 C 1 502 3 Y01 Y01 . W 9 NCT D 1 401 500 NCT NCT . X 6 NAG D 1 402 400 NAG NAG . Y 7 Y01 D 1 403 4 Y01 Y01 . Z 7 Y01 D 1 404 9 Y01 Y01 . AA 7 Y01 E 1 501 5 Y01 Y01 . BA 7 Y01 E 1 502 10 Y01 Y01 . # 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 NCT . . . R 9 108.921 125.66 171.364 1 102.94 ? N1 NCT 402 B 1 HETATM 2 C C1 NCT . . . R 9 108.448 126.003 170.142 1 102.94 ? C1 NCT 402 B 1 HETATM 3 C C2 NCT . . . R 9 107.107 125.793 169.751 1 102.94 ? C2 NCT 402 B 1 HETATM 4 C C3 NCT . . . R 9 106.252 125.204 170.676 1 102.94 ? C3 NCT 402 B 1 HETATM 5 C C4 NCT . . . R 9 106.715 124.84 171.939 1 102.94 ? C4 NCT 402 B 1 HETATM 6 C C5 NCT . . . R 9 108.061 125.086 172.245 1 102.94 ? C5 NCT 402 B 1 HETATM 7 N N2 NCT . . . R 9 107.127 127.574 168.058 1 102.94 ? N2 NCT 402 B 1 HETATM 8 C C6 NCT . . . R 9 106.62 126.188 168.391 1 102.94 ? C6 NCT 402 B 1 HETATM 9 C C7 NCT . . . R 9 107.168 125.437 167.233 1 102.94 ? C7 NCT 402 B 1 HETATM 10 C C8 NCT . . . R 9 107.166 126.361 166.04 1 102.94 ? C8 NCT 402 B 1 HETATM 11 C C9 NCT . . . R 9 107.127 127.737 166.612 1 102.94 ? C9 NCT 402 B 1 HETATM 12 C C10 NCT . . . R 9 106.033 128.393 168.506 1 102.94 ? C10 NCT 402 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 12 #