data_2XVU # _model_server_result.job_id J77gXEfkYA1sNqhCkNsDZA _model_server_result.datetime_utc '2024-12-26 19:30:03' _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 2xvu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2001}' # _entry.id 2XVU # _exptl.entry_id 2XVU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 365.404 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DANSYL-L-ASPARAGINE _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 81.34 _cell.angle_beta 90.93 _cell.angle_gamma 64.6 _cell.entry_id 2XVU _cell.length_a 54.85 _cell.length_b 55.25 _cell.length_c 119.73 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XVU _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 monomeric 1 software_defined_assembly 1 PISA monomeric 1 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,C,D,G 1 1 B,E,F,H 2 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 ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N # 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 53 A CYS 53 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 90 A CYS 90 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf4 A SG CYS 124 A CYS 124 1_555 A SG CYS 169 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 168 A CYS 168 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 A SG CYS 200 A CYS 200 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 245 A CYS 245 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 A SG CYS 265 A CYS 265 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf9 A SG CYS 278 A CYS 278 1_555 A SG CYS 289 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf10 A SG CYS 316 A CYS 316 1_555 A SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf11 A SG CYS 360 A CYS 360 1_555 A SG CYS 369 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 A SG CYS 392 A CYS 392 1_555 A SG CYS 438 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf13 A SG CYS 437 A CYS 437 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf14 A SG CYS 461 A CYS 461 1_555 A SG CYS 477 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf15 A SG CYS 476 A CYS 476 1_555 A SG CYS 487 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf16 A SG CYS 514 A CYS 514 1_555 A SG CYS 559 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf17 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf18 B SG CYS 53 B CYS 53 1_555 B SG CYS 62 B CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf19 B SG CYS 75 B CYS 75 1_555 B SG CYS 91 B CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf20 B SG CYS 90 B CYS 90 1_555 B SG CYS 101 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf21 B SG CYS 124 B CYS 124 1_555 B SG CYS 169 B CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf22 B SG CYS 168 B CYS 168 1_555 B SG CYS 177 B CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf23 B SG CYS 200 B CYS 200 1_555 B SG CYS 246 B CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf24 B SG CYS 245 B CYS 245 1_555 B SG CYS 253 B CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf25 B SG CYS 265 B CYS 265 1_555 B SG CYS 279 B CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf26 B SG CYS 278 B CYS 278 1_555 B SG CYS 289 B CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf27 B SG CYS 316 B CYS 316 1_555 B SG CYS 361 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf28 B SG CYS 360 B CYS 360 1_555 B SG CYS 369 B CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf29 B SG CYS 392 B CYS 392 1_555 B SG CYS 438 B CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf30 B SG CYS 437 B CYS 437 1_555 B SG CYS 448 B CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf31 B SG CYS 461 B CYS 461 1_555 B SG CYS 477 B CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf32 B SG CYS 476 B CYS 476 1_555 B SG CYS 487 B CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf33 B SG CYS 514 B CYS 514 1_555 B SG CYS 559 B CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf34 B SG CYS 558 B CYS 558 1_555 B SG CYS 567 B CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? # _chem_comp.formula 'C16 H19 N3 O5 S' _chem_comp.formula_weight 365.404 _chem_comp.id 9DN _chem_comp.mon_nstd_flag n _chem_comp.name DANSYL-L-ASPARAGINE _chem_comp.type 'l-peptide linking' _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 S1 O2 9DN doub 1 n n S1 O3 9DN doub 2 n n S1 C1 9DN sing 3 n n S1 N 9DN sing 4 n n OXT C 9DN sing 5 n n N1 C10 9DN sing 6 n n N1 C11 9DN sing 7 n n N1 C12 9DN sing 8 n n C1 C2 9DN sing 9 n y C1 C6 9DN doub 10 n y C2 C3 9DN doub 11 n y C3 C4 9DN sing 12 n y C4 C5 9DN doub 13 n y C5 C6 9DN sing 14 n y C5 C10 9DN sing 15 n y C6 C7 9DN sing 16 n y C7 C8 9DN doub 17 n y C8 C9 9DN sing 18 n y C9 C10 9DN doub 19 n y N CA 9DN sing 20 n n CA C 9DN sing 21 n n CA CB 9DN sing 22 n n C O 9DN doub 23 n n CB CG 9DN sing 24 n n CG OD1 9DN doub 25 n n CG ND2 9DN sing 26 n n N H 9DN sing 27 n n OXT HXT 9DN sing 28 n n C11 H111 9DN sing 29 n n C11 H112 9DN sing 30 n n C11 H113 9DN sing 31 n n C12 H121 9DN sing 32 n n C12 H122 9DN sing 33 n n C12 H123 9DN sing 34 n n C2 H2 9DN sing 35 n n C3 H3 9DN sing 36 n n C4 H4 9DN sing 37 n n C7 H7 9DN sing 38 n n C8 H8 9DN sing 39 n n C9 H9 9DN sing 40 n n CA HA 9DN sing 41 n n CB HB1C 9DN sing 42 n n CB HB2C 9DN sing 43 n n ND2 HD21 9DN sing 44 n n ND2 HD22 9DN sing 45 n n # _atom_sites.entry_id 2XVU _atom_sites.fract_transf_matrix[1][1] 0.018232 _atom_sites.fract_transf_matrix[1][2] -0.008657 _atom_sites.fract_transf_matrix[1][3] 0.001834 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020036 _atom_sites.fract_transf_matrix[2][3] -0.003549 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008483 _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 C 2 9DN A 1 2001 2001 9DN 9DN . D 2 9DN A 1 2002 2002 9DN 9DN . E 2 9DN B 1 2001 2001 9DN 9DN . F 2 9DN B 1 2002 2002 9DN 9DN . G 3 HOH A 1 3001 3001 HOH HOH . G 3 HOH A 2 3002 3002 HOH HOH . G 3 HOH A 3 3003 3003 HOH HOH . G 3 HOH A 4 3004 3004 HOH HOH . G 3 HOH A 5 3005 3005 HOH HOH . G 3 HOH A 6 3006 3006 HOH HOH . G 3 HOH A 7 3007 3007 HOH HOH . G 3 HOH A 8 3008 3008 HOH HOH . G 3 HOH A 9 3009 3009 HOH HOH . G 3 HOH A 10 3010 3010 HOH HOH . G 3 HOH A 11 3011 3011 HOH HOH . G 3 HOH A 12 3012 3012 HOH HOH . G 3 HOH A 13 3013 3013 HOH HOH . G 3 HOH A 14 3014 3014 HOH HOH . G 3 HOH A 15 3015 3015 HOH HOH . G 3 HOH A 16 3016 3016 HOH HOH . G 3 HOH A 17 3017 3017 HOH HOH . H 3 HOH B 1 3001 3001 HOH HOH . H 3 HOH B 2 3002 3002 HOH HOH . H 3 HOH B 3 3003 3003 HOH HOH . H 3 HOH B 4 3004 3004 HOH HOH . H 3 HOH B 5 3005 3005 HOH HOH . H 3 HOH B 6 3006 3006 HOH HOH . H 3 HOH B 7 3007 3007 HOH HOH . H 3 HOH B 8 3008 3008 HOH HOH . H 3 HOH B 9 3009 3009 HOH HOH . H 3 HOH B 10 3010 3010 HOH HOH . H 3 HOH B 11 3011 3011 HOH HOH . H 3 HOH B 12 3012 3012 HOH HOH . H 3 HOH B 13 3013 3013 HOH HOH . H 3 HOH B 14 3014 3014 HOH HOH . H 3 HOH B 15 3015 3015 HOH HOH . H 3 HOH B 16 3016 3016 HOH HOH . H 3 HOH B 17 3017 3017 HOH HOH . H 3 HOH B 18 3018 3018 HOH HOH . # 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 N 9DN . . . E 2 43.637 37.012 53.548 1 74.9 ? N 9DN 2001 B 1 HETATM 2 C CA 9DN . . . E 2 44.348 35.982 54.308 1 72.41 ? CA 9DN 2001 B 1 HETATM 3 C C 9DN . . . E 2 44.848 36.41 55.681 1 71.57 ? C 9DN 2001 B 1 HETATM 4 O O 9DN . . . E 2 45.24 37.646 55.834 1 70.6 ? O 9DN 2001 B 1 HETATM 5 C CB 9DN . . . E 2 45.529 35.454 53.446 1 71.99 ? CB 9DN 2001 B 1 HETATM 6 C CG 9DN . . . E 2 45.171 34.191 52.672 1 72.76 ? CG 9DN 2001 B 1 HETATM 7 O OD1 9DN . . . E 2 44.162 33.516 52.955 1 71.82 ? OD1 9DN 2001 B 1 HETATM 8 N ND2 9DN . . . E 2 45.993 33.85 51.679 1 74.43 ? ND2 9DN 2001 B 1 HETATM 9 O OXT 9DN . . . E 2 44.888 35.618 56.616 1 69.67 ? OXT 9DN 2001 B 1 HETATM 10 S S1 9DN . . . E 2 42 37.199 53.663 1 76.59 ? S1 9DN 2001 B 1 HETATM 11 O O2 9DN . . . E 2 41.439 35.967 54.128 1 76.39 ? O2 9DN 2001 B 1 HETATM 12 O O3 9DN . . . E 2 41.794 38.376 54.483 1 75.04 ? O3 9DN 2001 B 1 HETATM 13 N N1 9DN . . . E 2 40.515 36.614 47.062 1 81.95 ? N1 9DN 2001 B 1 HETATM 14 C C1 9DN . . . E 2 41.415 37.57 51.959 1 78.53 ? C1 9DN 2001 B 1 HETATM 15 C C2 9DN . . . E 2 40.888 38.832 51.723 1 79.95 ? C2 9DN 2001 B 1 HETATM 16 C C3 9DN . . . E 2 40.414 39.219 50.435 1 79.94 ? C3 9DN 2001 B 1 HETATM 17 C C4 9DN . . . E 2 40.468 38.336 49.387 1 80.32 ? C4 9DN 2001 B 1 HETATM 18 C C5 9DN . . . E 2 40.995 37.006 49.524 1 80.57 ? C5 9DN 2001 B 1 HETATM 19 C C6 9DN . . . E 2 41.495 36.568 50.857 1 80.29 ? C6 9DN 2001 B 1 HETATM 20 C C7 9DN . . . E 2 42.012 35.244 50.97 1 80.87 ? C7 9DN 2001 B 1 HETATM 21 C C8 9DN . . . E 2 42.051 34.367 49.874 1 80.97 ? C8 9DN 2001 B 1 HETATM 22 C C9 9DN . . . E 2 41.566 34.784 48.563 1 81.34 ? C9 9DN 2001 B 1 HETATM 23 C C10 9DN . . . E 2 41.024 36.112 48.354 1 81.31 ? C10 9DN 2001 B 1 HETATM 24 C C11 9DN . . . E 2 41.6 37.079 46.174 1 82.43 ? C11 9DN 2001 B 1 HETATM 25 C C12 9DN . . . E 2 39.741 35.603 46.277 1 83.04 ? C12 9DN 2001 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 25 #