data_4YCG # _model_server_result.job_id XVW9BX3DKfvtSthF5qxiIg _model_server_result.datetime_utc '2024-11-27 21:04:21' _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 4ycg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":502}' # _entry.id 4YCG # _exptl.entry_id 4YCG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _entity.pdbx_number_of_molecules 10 _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 120 _cell.entry_id 4YCG _cell.length_a 120.78 _cell.length_b 120.78 _cell.length_c 220.62 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YCG _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I,J,K,L,M,N,O,P,Q,R,S,T _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 ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n E NAG 1 E 1 NAG A 3113 NAG 3 n E NAG 2 E 2 NAG A 3114 NAG 3 n F NAG 1 F 1 NAG B 3113 NAG 3 n F NAG 2 F 2 NAG B 3114 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 133 A CYS 133 1_555 A SG CYS 214 A CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 133 B CYS 133 1_555 B SG CYS 214 B CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 C SG CYS 8 C CYS 305 1_555 C SG CYS 74 C CYS 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 C SG CYS 37 C CYS 334 1_555 C SG CYS 107 C CYS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 C SG CYS 41 C CYS 338 1_555 C SG CYS 109 C CYS 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 D SG CYS 8 D CYS 305 1_555 D SG CYS 74 D CYS 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 D SG CYS 37 D CYS 334 1_555 D SG CYS 107 D CYS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 D SG CYS 41 D CYS 338 1_555 D SG CYS 109 D CYS 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 113 A ASN 113 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 B ND2 ASN 113 B ASN 113 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OE1 GLU 101 A GLU 101 1_555 J ZN ZN . A ZN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc2 A OD2 ASP 102 A ASP 102 1_555 M ZN ZN . B ZN 304 5_547 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc3 A NE2 HIS 119 A HIS 119 1_555 H ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc4 A OE2 GLU 120 A GLU 120 1_555 H ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc5 A NE2 HIS 141 A HIS 141 1_555 G ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc6 A OE1 GLU 144 A GLU 144 1_555 K ZN ZN . A ZN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc7 A OE2 GLU 144 A GLU 144 1_555 K ZN ZN . A ZN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc8 A OD1 ASP 173 A ASP 173 1_555 I ZN ZN . A ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc9 A OD2 ASP 173 A ASP 173 1_555 I ZN ZN . A ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc10 A ND1 HIS 210 A HIS 210 1_555 K ZN ZN . A ZN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc11 A OE1 GLU 212 A GLU 212 1_555 G ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc12 A OE2 GLU 212 A GLU 212 1_555 G ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc13 A OE1 GLU 244 A GLU 244 1_555 H ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc14 A OE2 GLU 244 A GLU 244 1_555 H ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc15 G ZN ZN . A ZN 303 4_657 D OD2 ASP 48 D ASP 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? metalc ? metalc16 H ZN ZN . A ZN 304 1_555 Q O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? metalc ? metalc17 I ZN ZN . A ZN 305 5_447 B OD2 ASP 102 B ASP 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc18 J ZN ZN . A ZN 306 5_447 B OE2 GLU 144 B GLU 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? metalc ? metalc19 J ZN ZN . A ZN 306 5_447 B ND1 HIS 210 B HIS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc20 K ZN ZN . A ZN 307 5_447 B OE1 GLU 101 B GLU 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc21 Q O HOH . A HOH 403 5_447 M ZN ZN . B ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc22 B OE2 GLU 120 B GLU 120 1_555 N ZN ZN . B ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc23 B OD1 ASP 136 B ASP 136 1_555 L ZN ZN . B ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc24 B OD2 ASP 136 B ASP 136 1_555 L ZN ZN . B ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc25 B OD1 ASP 173 B ASP 173 1_555 M ZN ZN . B ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc26 B OD2 ASP 173 B ASP 173 1_555 M ZN ZN . B ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc27 B OD1 ASP 215 B ASP 215 1_555 L ZN ZN . B ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc28 B OD2 ASP 215 B ASP 215 1_555 L ZN ZN . B ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc29 B OE1 GLU 244 B GLU 244 1_555 N ZN ZN . B ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc30 B OE2 GLU 244 B GLU 244 1_555 N ZN ZN . B ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc31 L ZN ZN . B ZN 303 2_554 D NE2 HIS 62 D HIS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc32 M ZN ZN . B ZN 304 1_555 R O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc33 C NE2 HIS 62 C HIS 359 1_555 P ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc34 C OE2 GLU 100 C GLU 397 1_555 O ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc35 P ZN ZN . C ZN 502 1_555 S O HOH . C HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc36 P ZN ZN . C ZN 502 1_555 S O HOH . C HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4YCG _atom_sites.fract_transf_matrix[1][1] 0.00828 _atom_sites.fract_transf_matrix[1][2] 0.00478 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00956 _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] 0.004533 _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 G 4 ZN A 1 303 1 ZN ZN . H 4 ZN A 1 304 4 ZN ZN . I 4 ZN A 1 305 5 ZN ZN . J 4 ZN A 1 306 7 ZN ZN . K 4 ZN A 1 307 10 ZN ZN . L 4 ZN B 1 303 2 ZN ZN . M 4 ZN B 1 304 3 ZN ZN . N 4 ZN B 1 305 6 ZN ZN . O 4 ZN C 1 501 8 ZN ZN . P 4 ZN C 1 502 11 ZN ZN . Q 5 HOH A 1 401 12 HOH WAT . Q 5 HOH A 2 402 20 HOH WAT . Q 5 HOH A 3 403 8 HOH WAT . Q 5 HOH A 4 404 22 HOH WAT . Q 5 HOH A 5 405 3 HOH WAT . Q 5 HOH A 6 406 11 HOH WAT . Q 5 HOH A 7 407 15 HOH WAT . R 5 HOH B 1 401 9 HOH WAT . R 5 HOH B 2 402 5 HOH WAT . R 5 HOH B 3 403 6 HOH WAT . R 5 HOH B 4 404 7 HOH WAT . S 5 HOH C 1 601 10 HOH WAT . S 5 HOH C 2 602 1 HOH WAT . S 5 HOH C 3 603 2 HOH WAT . S 5 HOH C 4 604 13 HOH WAT . S 5 HOH C 5 605 14 HOH WAT . S 5 HOH C 6 606 16 HOH WAT . S 5 HOH C 7 607 25 HOH WAT . T 5 HOH D 1 501 18 HOH WAT . T 5 HOH D 2 502 26 HOH WAT . T 5 HOH D 3 503 27 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id P _atom_site.label_entity_id 4 _atom_site.Cartn_x -2.129 _atom_site.Cartn_y -10.67 _atom_site.Cartn_z 220.072 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 175.2 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 502 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 235 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #