data_2XVW # _model_server_result.job_id 8NnMG0XRTHweongTYEMPug _model_server_result.datetime_utc '2024-11-05 23:55:31' _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 2xvw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":2002}' # _entry.id 2XVW # _exptl.entry_id 2XVW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 407.487 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DANSYL-L-ARGININE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.64 _cell.angle_gamma 90 _cell.entry_id 2XVW _cell.length_a 187.08 _cell.length_b 38.76 _cell.length_c 95.73 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XVW _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 _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 ? 3 H N N ? 3 I 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf3 A SG CYS 90 A CYS 90 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 124 A CYS 124 1_555 A SG CYS 169 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 A SG CYS 168 A CYS 168 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 A SG CYS 200 A CYS 200 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 A SG CYS 245 A CYS 245 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf8 A SG CYS 265 A CYS 265 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 A SG CYS 278 A CYS 278 1_555 A SG CYS 289 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf10 A SG CYS 316 A CYS 316 1_555 A SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 A SG CYS 360 A CYS 360 1_555 A SG CYS 369 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf12 A SG CYS 392 A CYS 392 1_555 A SG CYS 438 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf13 A SG CYS 437 A CYS 437 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf14 A SG CYS 461 A CYS 461 1_555 A SG CYS 477 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf15 A SG CYS 476 A CYS 476 1_555 A SG CYS 487 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf16 A SG CYS 514 A CYS 514 1_555 A SG CYS 559 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf17 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? # _chem_comp.formula 'C18 H25 N5 O4 S' _chem_comp.formula_weight 407.487 _chem_comp.id 9NR _chem_comp.mon_nstd_flag n _chem_comp.name DANSYL-L-ARGININE _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 9NR doub 1 n n S1 O3 9NR doub 2 n n S1 C1 9NR sing 3 n n S1 N 9NR sing 4 n n OXT C 9NR sing 5 n n N1 C10 9NR sing 6 n n N1 C11 9NR sing 7 n n N1 C12 9NR sing 8 n n C1 C2 9NR sing 9 n y C1 C6 9NR doub 10 n y C2 C3 9NR doub 11 n y C3 C4 9NR sing 12 n y C4 C5 9NR doub 13 n y C5 C6 9NR sing 14 n y C5 C10 9NR sing 15 n y C6 C7 9NR sing 16 n y C7 C8 9NR doub 17 n y C8 C9 9NR sing 18 n y C9 C10 9NR doub 19 n y N CA 9NR sing 20 n n CA C 9NR sing 21 n n CA CB 9NR sing 22 n n C O 9NR doub 23 n n CB CG 9NR sing 24 n n CG CD 9NR sing 25 n n CD NE 9NR sing 26 n n NE CZ 9NR sing 27 n n CZ NH1 9NR doub 28 n n CZ NH2 9NR sing 29 n n N H 9NR sing 30 n n OXT HXT 9NR sing 31 n n C11 H111 9NR sing 32 n n C11 H112 9NR sing 33 n n C11 H113 9NR sing 34 n n C12 H121 9NR sing 35 n n C12 H122 9NR sing 36 n n C12 H123 9NR sing 37 n n C2 H2 9NR sing 38 n n C3 H3 9NR sing 39 n n C4 H4 9NR sing 40 n n C7 H7 9NR sing 41 n n C8 H8 9NR sing 42 n n C9 H9 9NR sing 43 n n CA HA 9NR sing 44 n n CB HB1C 9NR sing 45 n n CB HB2C 9NR sing 46 n n CG HG1C 9NR sing 47 n n CG HG2C 9NR sing 48 n n CD HD1C 9NR sing 49 n n CD HD2C 9NR sing 50 n n NH1 HH11 9NR sing 51 n n NH2 HH21 9NR sing 52 n n NH2 HH22 9NR sing 53 n n NE HE 9NR sing 54 n n # _atom_sites.entry_id 2XVW _atom_sites.fract_transf_matrix[1][1] 0.005345 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001496 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0258 _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] 0.010848 _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 B 2 MYR A 1 1001 1001 MYR MYR . C 2 MYR A 1 1002 1002 MYR MYR . D 2 MYR A 1 1003 1003 MYR MYR . E 2 MYR A 1 1004 1004 MYR MYR . F 2 MYR A 1 1005 1005 MYR MYR . G 2 MYR A 1 1006 1006 MYR MYR . H 3 9NR A 1 2001 2001 9NR 9NR . I 3 9NR A 1 2002 2002 9NR 9NR . J 4 HOH A 1 2003 2003 HOH HOH . J 4 HOH A 2 2004 2004 HOH HOH . J 4 HOH A 3 2005 2005 HOH HOH . J 4 HOH A 4 2006 2006 HOH HOH . J 4 HOH A 5 2007 2007 HOH HOH . J 4 HOH A 6 2008 2008 HOH HOH . J 4 HOH A 7 2009 2009 HOH HOH . J 4 HOH A 8 2010 2010 HOH HOH . J 4 HOH A 9 2011 2011 HOH HOH . J 4 HOH A 10 2012 2012 HOH HOH . J 4 HOH A 11 2013 2013 HOH HOH . J 4 HOH A 12 2014 2014 HOH HOH . J 4 HOH A 13 2015 2015 HOH HOH . J 4 HOH A 14 2016 2016 HOH HOH . J 4 HOH A 15 2017 2017 HOH HOH . J 4 HOH A 16 2018 2018 HOH HOH . J 4 HOH A 17 2019 2019 HOH HOH . J 4 HOH A 18 2020 2020 HOH HOH . J 4 HOH A 19 2021 2021 HOH HOH . J 4 HOH A 20 2022 2022 HOH HOH . J 4 HOH A 21 2023 2023 HOH HOH . J 4 HOH A 22 2024 2024 HOH HOH . J 4 HOH A 23 2025 2025 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 9NR . . . I 3 27.296 8.236 32.668 0 73.36 ? N 9NR 2002 A 1 HETATM 2 C CA 9NR . . . I 3 25.855 7.9 32.513 0 72.75 ? CA 9NR 2002 A 1 HETATM 3 C C 9NR . . . I 3 25.152 8.209 33.829 0 72.62 ? C 9NR 2002 A 1 HETATM 4 O O 9NR . . . I 3 23.857 8.266 33.743 0 72.5 ? O 9NR 2002 A 1 HETATM 5 C CB 9NR . . . I 3 25.542 6.418 32.054 0 72.19 ? CB 9NR 2002 A 1 HETATM 6 C CG 9NR . . . I 3 25.502 5.279 33.097 0 71.41 ? CG 9NR 2002 A 1 HETATM 7 C CD 9NR . . . I 3 26.355 4.106 32.623 0 70.78 ? CD 9NR 2002 A 1 HETATM 8 N NE 9NR . . . I 3 27.24 3.606 33.67 0 70.2 ? NE 9NR 2002 A 1 HETATM 9 C CZ 9NR . . . I 3 28.108 2.608 33.515 0 69.92 ? CZ 9NR 2002 A 1 HETATM 10 N NH1 9NR . . . I 3 28.228 1.993 32.341 0 69.71 ? NH1 9NR 2002 A 1 HETATM 11 N NH2 9NR . . . I 3 28.863 2.234 34.537 0 69.71 ? NH2 9NR 2002 A 1 HETATM 12 O OXT 9NR . . . I 3 25.815 8.391 34.838 0 72.52 ? OXT 9NR 2002 A 1 HETATM 13 S S1 9NR . . . I 3 28.606 7.441 32.104 1 74.73 ? S1 9NR 2002 A 1 HETATM 14 O O2 9NR . . . I 3 29.563 7.528 33.155 1 75 ? O2 9NR 2002 A 1 HETATM 15 O O3 9NR . . . I 3 28.241 6.116 31.734 1 75.74 ? O3 9NR 2002 A 1 HETATM 16 N N1 9NR . . . I 3 31.451 12.198 28.242 1 64.11 ? N1 9NR 2002 A 1 HETATM 17 C C1 9NR . . . I 3 29.247 8.3 30.641 1 70.94 ? C1 9NR 2002 A 1 HETATM 18 C C2 9NR . . . I 3 29.146 7.629 29.408 1 69.31 ? C2 9NR 2002 A 1 HETATM 19 C C3 9NR . . . I 3 29.633 8.241 28.208 1 66.4 ? C3 9NR 2002 A 1 HETATM 20 C C4 9NR . . . I 3 30.211 9.495 28.238 1 64.73 ? C4 9NR 2002 A 1 HETATM 21 C C5 9NR . . . I 3 30.35 10.247 29.471 1 65.41 ? C5 9NR 2002 A 1 HETATM 22 C C6 9NR . . . I 3 29.863 9.648 30.735 1 67.74 ? C6 9NR 2002 A 1 HETATM 23 C C7 9NR . . . I 3 30.008 10.407 31.95 1 67.51 ? C7 9NR 2002 A 1 HETATM 24 C C8 9NR . . . I 3 30.594 11.671 31.952 1 64.71 ? C8 9NR 2002 A 1 HETATM 25 C C9 9NR . . . I 3 31.069 12.262 30.748 1 64.09 ? C9 9NR 2002 A 1 HETATM 26 C C10 9NR . . . I 3 30.968 11.591 29.508 1 64.11 ? C10 9NR 2002 A 1 HETATM 27 C C11 9NR . . . I 3 31.586 13.677 28.305 1 64.49 ? C11 9NR 2002 A 1 HETATM 28 C C12 9NR . . . I 3 32.773 11.678 27.753 1 64.15 ? C12 9NR 2002 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 28 #