data_3DMK # _model_server_result.job_id NEJNM1q_J2RBp30bPQ3GeA _model_server_result.datetime_utc '2024-11-04 20:01:16' _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 3dmk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":792}' # _entry.id 3DMK # _exptl.entry_id 3DMK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 96.063 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SULFATE ION' _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 3DMK _cell.length_a 118.46 _cell.length_b 177.61 _cell.length_c 434.05 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DMK _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,I,L,M,N,O,P 1 1 C,J,K 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id N _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 NAG 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 2 n D NAG 1 D 1 NAG A 782 NAG 2 n D NAG 2 D 2 NAG A 783 NAG 2 n E NAG 1 E 1 NAG A 784 NAG 2 n E NAG 2 E 2 NAG A 785 NAG 2 n F NAG 1 F 1 NAG B 782 NAG 2 n F NAG 2 F 2 NAG B 783 NAG 3 n G NAG 1 G 1 NAG B 784 NAG 3 n G NAG 2 G 2 NAG B 785 NAG 3 n G NAG 3 G 3 NAG B 786 NAG 3 n H NAG 1 H 1 NAG B 787 NDG 3 n H NAG 2 H 2 NAG B 788 NAG 3 n H NAG 3 H 3 NAG B 789 NAG 2 n I NAG 1 I 1 NAG B 790 NAG 2 n I NAG 2 I 2 NAG B 791 NAG 3 n J NAG 1 J 1 NAG C 782 NAG 3 n J NAG 2 J 2 NAG C 783 NAG 3 n J NAG 3 J 3 NAG C 784 NAG 3 n K NAG 1 K 1 NAG C 785 NDG 3 n K NAG 2 K 2 NAG C 786 NAG 3 n K NAG 3 K 3 NAG C 787 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 61 A CYS 26 1_555 A SG CYS 117 A CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 160 A CYS 125 1_555 A SG CYS 217 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 A SG CYS 270 A CYS 235 1_555 A SG CYS 323 A CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf4 A SG CYS 365 A CYS 330 1_555 A SG CYS 406 A CYS 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 A SG CYS 451 A CYS 416 1_555 A SG CYS 507 A CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 548 A CYS 513 1_555 A SG CYS 597 A CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 A SG CYS 641 A CYS 606 1_555 A SG CYS 694 A CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 A SG CYS 736 A CYS 701 1_555 A SG CYS 790 A CYS 755 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 B SG CYS 61 B CYS 26 1_555 B SG CYS 117 B CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf10 B SG CYS 160 B CYS 125 1_555 B SG CYS 217 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf11 B SG CYS 270 B CYS 235 1_555 B SG CYS 323 B CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 B SG CYS 365 B CYS 330 1_555 B SG CYS 406 B CYS 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 B SG CYS 451 B CYS 416 1_555 B SG CYS 507 B CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf14 B SG CYS 548 B CYS 513 1_555 B SG CYS 597 B CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf15 B SG CYS 641 B CYS 606 1_555 B SG CYS 694 B CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf16 C SG CYS 61 C CYS 26 1_555 C SG CYS 117 C CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf17 C SG CYS 160 C CYS 125 1_555 C SG CYS 217 C CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf18 C SG CYS 270 C CYS 235 1_555 C SG CYS 323 C CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf19 C SG CYS 365 C CYS 330 1_555 C SG CYS 406 C CYS 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf20 C SG CYS 451 C CYS 416 1_555 C SG CYS 507 C CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf21 C SG CYS 548 C CYS 513 1_555 C SG CYS 597 C CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf22 C SG CYS 641 C CYS 606 1_555 C SG CYS 694 C CYS 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 A ND2 ASN 53 A ASN 18 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale2 A ND2 ASN 326 A ASN 291 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale3 B ND2 ASN 53 B ASN 18 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale4 B ND2 ASN 326 B ASN 291 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale5 B ND2 ASN 493 B ASN 458 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale6 B ND2 ASN 578 B ASN 543 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale7 C ND2 ASN 493 C ASN 458 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale8 C ND2 ASN 578 C ASN 543 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale11 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale13 G O4 NAG . G NAG 2 1_555 G C1 NAG . G NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale14 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale15 H O4 NAG . H NAG 2 1_555 H C1 NAG . H NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale16 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale17 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale18 J O4 NAG . J NAG 2 1_555 J C1 NAG . J NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale19 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale20 K O4 NAG . K NAG 2 1_555 K C1 NAG . K NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? # _chem_comp.formula 'O4 S -2' _chem_comp.formula_weight 96.063 _chem_comp.id SO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'SULFATE ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 S O1 SO4 doub 331 n n S O2 SO4 doub 332 n n S O3 SO4 sing 333 n n S O4 SO4 sing 334 n n # _atom_sites.entry_id 3DMK _atom_sites.fract_transf_matrix[1][1] 0.008442 _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] 0.00563 _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] 0.002304 _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 4 GOL A 1 786 786 GOL GOL . M 4 GOL A 1 787 787 GOL GOL . N 5 SO4 B 1 792 792 SO4 SO4 . O 4 GOL B 1 793 793 GOL GOL . P 4 GOL B 1 794 794 GOL GOL . # 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 S S SO4 . . . N 5 -7.859 14.459 88.918 1 21.44 ? S SO4 792 B 1 HETATM 2 O O1 SO4 . . . N 5 -7.724 15.456 87.86 1 21 ? O1 SO4 792 B 1 HETATM 3 O O2 SO4 . . . N 5 -9.219 13.941 88.906 1 24.59 ? O2 SO4 792 B 1 HETATM 4 O O3 SO4 . . . N 5 -6.927 13.356 88.705 1 20.93 ? O3 SO4 792 B 1 HETATM 5 O O4 SO4 . . . N 5 -7.598 15.074 90.216 1 21.57 ? O4 SO4 792 B 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 5 #