data_3P70 # _model_server_result.job_id P-UW4QBg6yWG62yiOfKsJg _model_server_result.datetime_utc '2024-11-26 11:35:37' _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 3p70 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":1500}' # _entry.id 3P70 # _exptl.entry_id 3P70 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 72.57 _cell.angle_beta 84.05 _cell.angle_gamma 80.45 _cell.entry_id 3P70 _cell.length_a 62.243 _cell.length_b 68.227 _cell.length_c 98.972 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3P70 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # 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 trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 PISA trimeric 3 author_and_software_defined_assembly 3 PISA trimeric 3 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,O,P,Q,R,S,EA,FA 1 1 C,D,J,T,U,V,W,GA,JA 2 1 E,F,K,M,X,Y,Z,HA 3 1 G,H,L,N,AA,BA,CA,DA,IA 4 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 ? 7 Q N N ? 7 R N N ? 7 T N N ? 7 W N N ? 7 Y N N ? 7 AA N N ? 7 CA N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 4 n M NAG 1 I 1 NAG F 1416 NAG 4 n M NAG 2 I 2 NAG F 1417 NAG 4 n N NAG 1 J 1 NAG H 1416 NAG 4 n N NAG 2 J 2 NAG H 1417 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 9 A CYS 336 1_555 B SG CYS 119 B CYS 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf2 B SG CYS 28 B CYS 391 1_555 B SG CYS 44 B CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf3 B SG CYS 173 B CYS 536 1_555 B SG CYS 187 B CYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf4 B SG CYS 201 B CYS 564 1_555 B SG CYS 231 B CYS 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf5 C SG CYS 9 C CYS 336 1_555 D SG CYS 119 D CYS 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf6 D SG CYS 28 D CYS 391 1_555 D SG CYS 44 D CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 D SG CYS 173 D CYS 536 1_555 D SG CYS 187 D CYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf8 D SG CYS 201 D CYS 564 1_555 D SG CYS 231 D CYS 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? disulf ? disulf9 E SG CYS 9 E CYS 336 1_555 F SG CYS 119 F CYS 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 F SG CYS 28 F CYS 391 1_555 F SG CYS 44 F CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf11 F SG CYS 173 F CYS 536 1_555 F SG CYS 187 F CYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 F SG CYS 201 F CYS 564 1_555 F SG CYS 231 F CYS 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf13 G SG CYS 9 G CYS 336 1_555 H SG CYS 119 H CYS 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf14 H SG CYS 28 H CYS 391 1_555 H SG CYS 44 H CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf15 H SG CYS 173 H CYS 536 1_555 H SG CYS 187 H CYS 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf16 H SG CYS 201 H CYS 564 1_555 H SG CYS 231 H CYS 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? covale ? covale1 B ND2 ASN 53 B ASN 416 1_555 O C1 NAG . B NAG 1416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 D ND2 ASN 53 D ASN 416 1_555 U C1 NAG . D NAG 1416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 F ND2 ASN 53 F ASN 416 1_555 M C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 H ND2 ASN 53 H ASN 416 1_555 N C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 M O4 NAG . I NAG 1 1_555 M C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.394 ? covale ? covale6 N O4 NAG . J NAG 1 1_555 N C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? metalc ? metalc1 B O LEU 39 B LEU 402 1_555 R NA NA . B NA 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.945 ? metalc ? metalc2 B O GLY 206 B GLY 569 1_555 R NA NA . B NA 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc3 B O ARG 233 B ARG 596 1_555 Q NA NA . B NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? metalc ? metalc4 Q NA NA . B NA 1500 1_555 FA O HOH . B HOH 3503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc5 Q NA NA . B NA 1500 1_555 FA O HOH . B HOH 3517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc6 C O TYR 32 C TYR 359 1_555 T NA NA . C NA 3200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? metalc ? metalc7 T NA NA . C NA 3200 1_555 GA O HOH . C HOH 3511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc8 T NA NA . C NA 3200 1_555 D OH TYR 134 D TYR 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc9 D O ARG 233 D ARG 596 1_555 W NA NA . D NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc10 D O LYS 236 D LYS 599 1_555 W NA NA . D NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.798 ? metalc ? metalc11 F O ARG 233 F ARG 596 1_555 Y NA NA . F NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc12 F O LYS 236 F LYS 599 1_555 Y NA NA . F NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.095 ? metalc ? metalc13 Y NA NA . F NA 1500 1_555 HA O HOH . F HOH 3505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.827 ? metalc ? metalc14 G O TYR 32 G TYR 359 1_555 AA NA NA . G NA 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc15 AA NA NA . G NA 1501 1_555 H OH TYR 134 H TYR 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? metalc ? metalc16 H O ARG 233 H ARG 596 1_555 CA NA NA . H NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc17 H O LYS 236 H LYS 599 1_555 CA NA NA . H NA 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? metalc ? metalc18 CA NA NA . H NA 1500 1_555 IA O HOH . H HOH 3501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc19 CA NA NA . H NA 1500 1_555 IA O HOH . H HOH 3502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.177 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3P70 _atom_sites.fract_transf_matrix[1][1] 0.016066 _atom_sites.fract_transf_matrix[1][2] -0.002703 _atom_sites.fract_transf_matrix[1][3] -0.000936 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014863 _atom_sites.fract_transf_matrix[2][3] -0.004466 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.010607 _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 O 5 NAG B 1 1416 1416 NAG NAG . P 6 BEN B 1 2001 2001 BEN BEN . Q 7 NA B 1 1500 1500 NA NA . R 7 NA B 1 1501 1501 NA NA . S 8 BGC B 1 4202 4202 BGC BGC . T 7 NA C 1 3200 3200 NA NA . U 5 NAG D 1 1416 1416 NAG NAG . V 6 BEN D 1 2001 2001 BEN BEN . W 7 NA D 1 1500 1500 NA NA . X 6 BEN F 1 2001 2001 BEN BEN . Y 7 NA F 1 1500 1500 NA NA . Z 8 BGC F 1 4203 4203 BGC BGC . AA 7 NA G 1 1501 1501 NA NA . BA 6 BEN H 1 2001 2001 BEN BEN . CA 7 NA H 1 1500 1500 NA NA . DA 8 BGC H 1 4201 4201 BGC BGC . EA 9 HOH A 1 3500 3500 HOH HOH . FA 9 HOH B 1 3503 3503 HOH HOH . FA 9 HOH B 2 3504 3504 HOH HOH . FA 9 HOH B 3 3506 3506 HOH HOH . FA 9 HOH B 4 3513 3513 HOH HOH . FA 9 HOH B 5 3515 3515 HOH HOH . FA 9 HOH B 6 3516 3516 HOH HOH . FA 9 HOH B 7 3517 3517 HOH HOH . FA 9 HOH B 8 3518 3518 HOH HOH . FA 9 HOH B 9 3519 3519 HOH HOH . FA 9 HOH B 10 3520 3520 HOH HOH . FA 9 HOH B 11 3524 3524 HOH HOH . GA 9 HOH C 1 3508 3508 HOH HOH . GA 9 HOH C 2 3511 3511 HOH HOH . HA 9 HOH F 1 3505 3505 HOH HOH . HA 9 HOH F 2 3510 3510 HOH HOH . HA 9 HOH F 3 3512 3512 HOH HOH . HA 9 HOH F 4 3514 3514 HOH HOH . HA 9 HOH F 5 3521 3521 HOH HOH . HA 9 HOH F 6 3523 3523 HOH HOH . IA 9 HOH H 1 3501 3501 HOH HOH . IA 9 HOH H 2 3502 3502 HOH HOH . IA 9 HOH H 3 3522 3522 HOH HOH . JA 9 HOH N 1 3509 3509 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id Y _atom_site.label_entity_id 7 _atom_site.Cartn_x 34.227 _atom_site.Cartn_y 18.087 _atom_site.Cartn_z 46.668 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 42.24 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 1500 _atom_site.auth_asym_id F _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #