data_1XT9 # _entry.id 1XT9 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 1XT9 RCSB RCSB030742 WWPDB D_1000030742 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1XT9 _pdbx_database_status.recvd_initial_deposition_date 2004-10-21 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Reverter, D.' 1 'Wu, K.' 2 'Erdene, T.G.' 3 'Pan, Z.Q.' 4 'Wilkinson, K.D.' 5 'Lima, C.D.' 6 # _citation.id primary _citation.title 'Structure of a Complex between Nedd8 and the Ulp/Senp Protease Family Member Den1.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 345 _citation.page_first 141 _citation.page_last 151 _citation.year 2005 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15567417 _citation.pdbx_database_id_DOI 10.1016/j.jmb.2004.10.022 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Reverter, D.' 1 primary 'Wu, K.' 2 primary 'Erdene, T.G.' 3 primary 'Pan, Z.Q.' 4 primary 'Wilkinson, K.D.' 5 primary 'Lima, C.D.' 6 # _cell.entry_id 1XT9 _cell.length_a 68.849 _cell.length_b 71.626 _cell.length_c 52.947 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XT9 _symmetry.space_group_name_H-M 'P 21 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Sentrin-specific protease 8' 24133.281 1 3.4.22.- ? ? ? 2 polymer man Neddylin 8573.978 1 ? ? ? ? 3 water nat water 18.015 100 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'Sentrin/SUMO-specific protease SENP8, Cysteine protease FKSG8, Protease, cysteine 2, Den1 protease' 2 'Ubiquitin-like protein NEDD8' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;MDPVVLSYMDSLLRQSDVSLLDPPSWLNDHIIGFAFEYFANSQFHDCSDHVSFISPEVTQFIKCTSNPAEIAMFLEPLDL PNKRVVFLAINDNSNQAAGGTHWSLLVYLQDKNSFFHYDSHSRSNSVHAKQVAEKLEAFLGRKGDKLAFVEEKAPAQQNS YDCGMYVICNTEALCQNFFRQQTESLLQLLTPAYITKKRGEWKDLITTLAKK ; ;MDPVVLSYMDSLLRQSDVSLLDPPSWLNDHIIGFAFEYFANSQFHDCSDHVSFISPEVTQFIKCTSNPAEIAMFLEPLDL PNKRVVFLAINDNSNQAAGGTHWSLLVYLQDKNSFFHYDSHSRSNSVHAKQVAEKLEAFLGRKGDKLAFVEEKAPAQQNS YDCGMYVICNTEALCQNFFRQQTESLLQLLTPAYITKKRGEWKDLITTLAKK ; A ? 2 'polypeptide(L)' no no MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 ASP n 1 3 PRO n 1 4 VAL n 1 5 VAL n 1 6 LEU n 1 7 SER n 1 8 TYR n 1 9 MET n 1 10 ASP n 1 11 SER n 1 12 LEU n 1 13 LEU n 1 14 ARG n 1 15 GLN n 1 16 SER n 1 17 ASP n 1 18 VAL n 1 19 SER n 1 20 LEU n 1 21 LEU n 1 22 ASP n 1 23 PRO n 1 24 PRO n 1 25 SER n 1 26 TRP n 1 27 LEU n 1 28 ASN n 1 29 ASP n 1 30 HIS n 1 31 ILE n 1 32 ILE n 1 33 GLY n 1 34 PHE n 1 35 ALA n 1 36 PHE n 1 37 GLU n 1 38 TYR n 1 39 PHE n 1 40 ALA n 1 41 ASN n 1 42 SER n 1 43 GLN n 1 44 PHE n 1 45 HIS n 1 46 ASP n 1 47 CYS n 1 48 SER n 1 49 ASP n 1 50 HIS n 1 51 VAL n 1 52 SER n 1 53 PHE n 1 54 ILE n 1 55 SER n 1 56 PRO n 1 57 GLU n 1 58 VAL n 1 59 THR n 1 60 GLN n 1 61 PHE n 1 62 ILE n 1 63 LYS n 1 64 CYS n 1 65 THR n 1 66 SER n 1 67 ASN n 1 68 PRO n 1 69 ALA n 1 70 GLU n 1 71 ILE n 1 72 ALA n 1 73 MET n 1 74 PHE n 1 75 LEU n 1 76 GLU n 1 77 PRO n 1 78 LEU n 1 79 ASP n 1 80 LEU n 1 81 PRO n 1 82 ASN n 1 83 LYS n 1 84 ARG n 1 85 VAL n 1 86 VAL n 1 87 PHE n 1 88 LEU n 1 89 ALA n 1 90 ILE n 1 91 ASN n 1 92 ASP n 1 93 ASN n 1 94 SER n 1 95 ASN n 1 96 GLN n 1 97 ALA n 1 98 ALA n 1 99 GLY n 1 100 GLY n 1 101 THR n 1 102 HIS n 1 103 TRP n 1 104 SER n 1 105 LEU n 1 106 LEU n 1 107 VAL n 1 108 TYR n 1 109 LEU n 1 110 GLN n 1 111 ASP n 1 112 LYS n 1 113 ASN n 1 114 SER n 1 115 PHE n 1 116 PHE n 1 117 HIS n 1 118 TYR n 1 119 ASP n 1 120 SER n 1 121 HIS n 1 122 SER n 1 123 ARG n 1 124 SER n 1 125 ASN n 1 126 SER n 1 127 VAL n 1 128 HIS n 1 129 ALA n 1 130 LYS n 1 131 GLN n 1 132 VAL n 1 133 ALA n 1 134 GLU n 1 135 LYS n 1 136 LEU n 1 137 GLU n 1 138 ALA n 1 139 PHE n 1 140 LEU n 1 141 GLY n 1 142 ARG n 1 143 LYS n 1 144 GLY n 1 145 ASP n 1 146 LYS n 1 147 LEU n 1 148 ALA n 1 149 PHE n 1 150 VAL n 1 151 GLU n 1 152 GLU n 1 153 LYS n 1 154 ALA n 1 155 PRO n 1 156 ALA n 1 157 GLN n 1 158 GLN n 1 159 ASN n 1 160 SER n 1 161 TYR n 1 162 ASP n 1 163 CYS n 1 164 GLY n 1 165 MET n 1 166 TYR n 1 167 VAL n 1 168 ILE n 1 169 CYS n 1 170 ASN n 1 171 THR n 1 172 GLU n 1 173 ALA n 1 174 LEU n 1 175 CYS n 1 176 GLN n 1 177 ASN n 1 178 PHE n 1 179 PHE n 1 180 ARG n 1 181 GLN n 1 182 GLN n 1 183 THR n 1 184 GLU n 1 185 SER n 1 186 LEU n 1 187 LEU n 1 188 GLN n 1 189 LEU n 1 190 LEU n 1 191 THR n 1 192 PRO n 1 193 ALA n 1 194 TYR n 1 195 ILE n 1 196 THR n 1 197 LYS n 1 198 LYS n 1 199 ARG n 1 200 GLY n 1 201 GLU n 1 202 TRP n 1 203 LYS n 1 204 ASP n 1 205 LEU n 1 206 ILE n 1 207 THR n 1 208 THR n 1 209 LEU n 1 210 ALA n 1 211 LYS n 1 212 LYS n 2 1 MET n 2 2 LEU n 2 3 ILE n 2 4 LYS n 2 5 VAL n 2 6 LYS n 2 7 THR n 2 8 LEU n 2 9 THR n 2 10 GLY n 2 11 LYS n 2 12 GLU n 2 13 ILE n 2 14 GLU n 2 15 ILE n 2 16 ASP n 2 17 ILE n 2 18 GLU n 2 19 PRO n 2 20 THR n 2 21 ASP n 2 22 LYS n 2 23 VAL n 2 24 GLU n 2 25 ARG n 2 26 ILE n 2 27 LYS n 2 28 GLU n 2 29 ARG n 2 30 VAL n 2 31 GLU n 2 32 GLU n 2 33 LYS n 2 34 GLU n 2 35 GLY n 2 36 ILE n 2 37 PRO n 2 38 PRO n 2 39 GLN n 2 40 GLN n 2 41 GLN n 2 42 ARG n 2 43 LEU n 2 44 ILE n 2 45 TYR n 2 46 SER n 2 47 GLY n 2 48 LYS n 2 49 GLN n 2 50 MET n 2 51 ASN n 2 52 ASP n 2 53 GLU n 2 54 LYS n 2 55 THR n 2 56 ALA n 2 57 ALA n 2 58 ASP n 2 59 TYR n 2 60 LYS n 2 61 ILE n 2 62 LEU n 2 63 GLY n 2 64 GLY n 2 65 SER n 2 66 VAL n 2 67 LEU n 2 68 HIS n 2 69 LEU n 2 70 VAL n 2 71 LEU n 2 72 ALA n 2 73 LEU n 2 74 ARG n 2 75 GLY n 2 76 GLY n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _entity_src_gen.pdbx_seq_type _entity_src_gen.pdbx_beg_seq_num _entity_src_gen.pdbx_end_seq_num _entity_src_gen.gene_src_common_name _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _entity_src_gen.gene_src_species _entity_src_gen.gene_src_strain _entity_src_gen.gene_src_tissue _entity_src_gen.gene_src_tissue_fraction _entity_src_gen.gene_src_details _entity_src_gen.pdbx_gene_src_fragment _entity_src_gen.pdbx_gene_src_scientific_name _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _entity_src_gen.pdbx_gene_src_variant _entity_src_gen.pdbx_gene_src_cell_line _entity_src_gen.pdbx_gene_src_atcc _entity_src_gen.pdbx_gene_src_organ _entity_src_gen.pdbx_gene_src_organelle _entity_src_gen.pdbx_gene_src_cell _entity_src_gen.pdbx_gene_src_cellular_location _entity_src_gen.host_org_common_name _entity_src_gen.pdbx_host_org_scientific_name _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _entity_src_gen.host_org_genus _entity_src_gen.pdbx_host_org_gene _entity_src_gen.pdbx_host_org_organ _entity_src_gen.host_org_species _entity_src_gen.pdbx_host_org_tissue _entity_src_gen.pdbx_host_org_tissue_fraction _entity_src_gen.pdbx_host_org_strain _entity_src_gen.pdbx_host_org_variant _entity_src_gen.pdbx_host_org_cell_line _entity_src_gen.pdbx_host_org_atcc _entity_src_gen.pdbx_host_org_culture_collection _entity_src_gen.pdbx_host_org_cell _entity_src_gen.pdbx_host_org_organelle _entity_src_gen.pdbx_host_org_cellular_location _entity_src_gen.pdbx_host_org_vector_type _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample ? ? ? human Homo 'SENP8, FKSG8, PRSC2' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 Escherichia ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 'GLUTATHIONE S-TRANSFERASE FUSION, CLEAVED WITH THROMBIN;' 2 1 sample ? ? ? human Homo NEDD8 ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 Escherichia ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 'GLUTATHIONE S-TRANSFERASE FUSION, CLEAVED WITH THROMBIN' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP SENP8_HUMAN Q96LD8 1 ;MDPVVLSYMDSLLRQSDVSLLDPPSWLNDHIIGFAFEYFANSQFHDCSDHVSFISPEVTQFIKCTSNPAEIAMFLEPLDL PNKRVVFLAINDNSNQAAGGTHWSLLVYLQDKNSFFHYDSHSRSNSVHAKQVAEKLEAFLGRKGDKLAFVEEKAPAQQNS YDCGMYVICNTEALCQNFFRQQTESLLQLLTPAYITKKRGEWKDLITTLAKK ; 1 ? 2 UNP NEDD8_HUMAN Q15843 2 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 1 ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1XT9 A 1 ? 212 ? Q96LD8 1 ? 212 ? 1 212 2 2 1XT9 B 1 ? 76 ? Q15843 1 ? 76 ? 1 76 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 1XT9 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.91 _exptl_crystal.density_percent_sol 35.5 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 9.0 _exptl_crystal_grow.pdbx_details '2M ammonium sulfate, 0.1M bicine, 4% tert-butanol, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2003-10-22 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'SAGITALLY FOCUSED Si(111)' _diffrn_radiation.pdbx_diffrn_protocol SIR _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9790 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X4A' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X4A _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9790 # _reflns.entry_id 1XT9 _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 20 _reflns.d_resolution_high 2.0 _reflns.number_obs 22541 _reflns.number_all 24989 _reflns.percent_possible_obs 90.2 _reflns.pdbx_Rmerge_I_obs 0.087 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 12.5 _reflns.B_iso_Wilson_estimate 17.4 _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.0 _reflns_shell.d_res_low 2.17 _reflns_shell.percent_possible_all 85.2 _reflns_shell.Rmerge_I_obs 0.25 _reflns_shell.pdbx_Rsym_value 0.25 _reflns_shell.meanI_over_sigI_obs 1.86 _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1XT9 _refine.ls_number_reflns_obs 12635 _refine.ls_number_reflns_all 13842 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 1836633.79 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 19.62 _refine.ls_d_res_high 2.20 _refine.ls_percent_reflns_obs 91.5 _refine.ls_R_factor_obs 0.209 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.209 _refine.ls_R_factor_R_free 0.259 _refine.ls_R_factor_R_free_error 0.010 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 628 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 34.8 _refine.aniso_B[1][1] -12.67 _refine.aniso_B[2][2] 8.76 _refine.aniso_B[3][3] 3.90 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.3308 _refine.solvent_model_param_bsol 29.7169 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'Friedel pairs were used.' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SIR _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values 'Engh & Huber' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1XT9 _refine_analyze.Luzzati_coordinate_error_obs 0.26 _refine_analyze.Luzzati_sigma_a_obs 0.31 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.35 _refine_analyze.Luzzati_sigma_a_free 0.32 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2270 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 100 _refine_hist.number_atoms_total 2370 _refine_hist.d_res_high 2.20 _refine_hist.d_res_low 19.62 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.010 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.4 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 23.9 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 0.88 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.20 _refine_ls_shell.d_res_low 2.34 _refine_ls_shell.number_reflns_R_work 1742 _refine_ls_shell.R_factor_R_work 0.291 _refine_ls_shell.percent_reflns_obs 81.0 _refine_ls_shell.R_factor_R_free 0.333 _refine_ls_shell.R_factor_R_free_error 0.034 _refine_ls_shell.percent_reflns_R_free 5.2 _refine_ls_shell.number_reflns_R_free 96 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 PROTEIN_REP.PARAM PROTEIN.TOP 'X-RAY DIFFRACTION' 2 DNA-RNA_REP.PARAM DNA-RNA.TOP 'X-RAY DIFFRACTION' 3 WATER_REP.PARAM WATER.TOP 'X-RAY DIFFRACTION' 4 ION.PARAM ION.TO 'X-RAY DIFFRACTION' # _struct.entry_id 1XT9 _struct.title 'Crystal Structure of Den1 in complex with Nedd8' _struct.pdbx_descriptor 'Sentrin-specific protease 8 (E.C.3.4.22.-), Neddylin' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1XT9 _struct_keywords.pdbx_keywords 'HYDROLASE/HYDROLASE INHIBITOR' _struct_keywords.text 'Cysteine protease, ubiquitin-like, HYDROLASE-HYDROLASE INHIBITOR COMPLEX' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLN A 15 ? LEU A 20 ? GLN A 15 LEU A 20 1 ? 6 HELX_P HELX_P2 2 ASP A 29 ? SER A 42 ? ASP A 29 SER A 42 1 ? 14 HELX_P HELX_P3 3 PHE A 44 ? SER A 48 ? PHE A 44 SER A 48 5 ? 5 HELX_P HELX_P4 4 SER A 55 ? THR A 65 ? SER A 55 THR A 65 1 ? 11 HELX_P HELX_P5 5 GLU A 70 ? GLU A 76 ? GLU A 70 GLU A 76 1 ? 7 HELX_P HELX_P6 6 PRO A 77 ? LYS A 83 ? PRO A 77 LYS A 83 5 ? 7 HELX_P HELX_P7 7 ASN A 125 ? LYS A 135 ? ASN A 125 LYS A 135 1 ? 11 HELX_P HELX_P8 8 ASP A 162 ? ARG A 180 ? ASP A 162 ARG A 180 1 ? 19 HELX_P HELX_P9 9 SER A 185 ? LEU A 190 ? SER A 185 LEU A 190 1 ? 6 HELX_P HELX_P10 10 THR A 191 ? LYS A 211 ? THR A 191 LYS A 211 1 ? 21 HELX_P HELX_P11 11 LYS B 22 ? GLY B 35 ? LYS B 22 GLY B 35 1 ? 14 HELX_P HELX_P12 12 PRO B 37 ? GLN B 39 ? PRO B 37 GLN B 39 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id covale1 _struct_conn.conn_type_id covale _struct_conn.pdbx_leaving_atom_flag ? _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 163 _struct_conn.ptnr1_label_atom_id SG _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_comp_id GLY _struct_conn.ptnr2_label_seq_id 76 _struct_conn.ptnr2_label_atom_id C _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 163 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id GLY _struct_conn.ptnr2_auth_seq_id 76 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.details ? _struct_conn.pdbx_dist_value 1.840 _struct_conn.pdbx_value_order ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id PRO _struct_mon_prot_cis.label_seq_id 23 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id PRO _struct_mon_prot_cis.auth_seq_id 23 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 24 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 24 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle -0.33 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 2 ? C ? 5 ? D ? 5 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel C 4 5 ? parallel D 1 2 ? anti-parallel D 2 3 ? parallel D 3 4 ? anti-parallel D 4 5 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 VAL A 4 ? TYR A 8 ? VAL A 4 TYR A 8 A 2 SER A 11 ? ARG A 14 ? SER A 11 ARG A 14 B 1 LEU A 27 ? ASN A 28 ? LEU A 27 ASN A 28 B 2 ARG B 74 ? GLY B 75 ? ARG B 74 GLY B 75 C 1 VAL A 51 ? ILE A 54 ? VAL A 51 ILE A 54 C 2 VAL A 85 ? ASN A 91 ? VAL A 85 ASN A 91 C 3 TRP A 103 ? LEU A 109 ? TRP A 103 LEU A 109 C 4 SER A 114 ? TYR A 118 ? SER A 114 TYR A 118 C 5 ALA A 148 ? GLU A 151 ? ALA A 148 GLU A 151 D 1 GLU B 12 ? ASP B 16 ? GLU B 12 ASP B 16 D 2 LEU B 2 ? THR B 7 ? LEU B 2 THR B 7 D 3 VAL B 66 ? LEU B 71 ? VAL B 66 LEU B 71 D 4 GLN B 41 ? TYR B 45 ? GLN B 41 TYR B 45 D 5 LYS B 48 ? GLN B 49 ? LYS B 48 GLN B 49 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N VAL A 5 ? N VAL A 5 O LEU A 13 ? O LEU A 13 B 1 2 N LEU A 27 ? N LEU A 27 O GLY B 75 ? O GLY B 75 C 1 2 N ILE A 54 ? N ILE A 54 O PHE A 87 ? O PHE A 87 C 2 3 N LEU A 88 ? N LEU A 88 O LEU A 106 ? O LEU A 106 C 3 4 N VAL A 107 ? N VAL A 107 O PHE A 116 ? O PHE A 116 C 4 5 N PHE A 115 ? N PHE A 115 O ALA A 148 ? O ALA A 148 D 1 2 O ILE B 13 ? O ILE B 13 N VAL B 5 ? N VAL B 5 D 2 3 N LYS B 4 ? N LYS B 4 O LEU B 67 ? O LEU B 67 D 3 4 O HIS B 68 ? O HIS B 68 N ILE B 44 ? N ILE B 44 D 4 5 N TYR B 45 ? N TYR B 45 O LYS B 48 ? O LYS B 48 # _database_PDB_matrix.entry_id 1XT9 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 1XT9 _atom_sites.fract_transf_matrix[1][1] 0.014525 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.013961 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.018887 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 1 1 ? ? ? A . n A 1 2 ASP 2 2 2 ASP ASP A . n A 1 3 PRO 3 3 3 PRO PRO A . n A 1 4 VAL 4 4 4 VAL VAL A . n A 1 5 VAL 5 5 5 VAL VAL A . n A 1 6 LEU 6 6 6 LEU LEU A . n A 1 7 SER 7 7 7 SER SER A . n A 1 8 TYR 8 8 8 TYR TYR A . n A 1 9 MET 9 9 9 MET MET A . n A 1 10 ASP 10 10 10 ASP ASP A . n A 1 11 SER 11 11 11 SER SER A . n A 1 12 LEU 12 12 12 LEU LEU A . n A 1 13 LEU 13 13 13 LEU LEU A . n A 1 14 ARG 14 14 14 ARG ARG A . n A 1 15 GLN 15 15 15 GLN GLN A . n A 1 16 SER 16 16 16 SER SER A . n A 1 17 ASP 17 17 17 ASP ASP A . n A 1 18 VAL 18 18 18 VAL VAL A . n A 1 19 SER 19 19 19 SER SER A . n A 1 20 LEU 20 20 20 LEU LEU A . n A 1 21 LEU 21 21 21 LEU LEU A . n A 1 22 ASP 22 22 22 ASP ASP A . n A 1 23 PRO 23 23 23 PRO PRO A . n A 1 24 PRO 24 24 24 PRO PRO A . n A 1 25 SER 25 25 25 SER SER A . n A 1 26 TRP 26 26 26 TRP TRP A . n A 1 27 LEU 27 27 27 LEU LEU A . n A 1 28 ASN 28 28 28 ASN ASN A . n A 1 29 ASP 29 29 29 ASP ASP A . n A 1 30 HIS 30 30 30 HIS HIS A . n A 1 31 ILE 31 31 31 ILE ILE A . n A 1 32 ILE 32 32 32 ILE ILE A . n A 1 33 GLY 33 33 33 GLY GLY A . n A 1 34 PHE 34 34 34 PHE PHE A . n A 1 35 ALA 35 35 35 ALA ALA A . n A 1 36 PHE 36 36 36 PHE PHE A . n A 1 37 GLU 37 37 37 GLU GLU A . n A 1 38 TYR 38 38 38 TYR TYR A . n A 1 39 PHE 39 39 39 PHE PHE A . n A 1 40 ALA 40 40 40 ALA ALA A . n A 1 41 ASN 41 41 41 ASN ASN A . n A 1 42 SER 42 42 42 SER SER A . n A 1 43 GLN 43 43 43 GLN GLN A . n A 1 44 PHE 44 44 44 PHE PHE A . n A 1 45 HIS 45 45 45 HIS HIS A . n A 1 46 ASP 46 46 46 ASP ASP A . n A 1 47 CYS 47 47 47 CYS CYS A . n A 1 48 SER 48 48 48 SER SER A . n A 1 49 ASP 49 49 49 ASP ASP A . n A 1 50 HIS 50 50 50 HIS HIS A . n A 1 51 VAL 51 51 51 VAL VAL A . n A 1 52 SER 52 52 52 SER SER A . n A 1 53 PHE 53 53 53 PHE PHE A . n A 1 54 ILE 54 54 54 ILE ILE A . n A 1 55 SER 55 55 55 SER SER A . n A 1 56 PRO 56 56 56 PRO PRO A . n A 1 57 GLU 57 57 57 GLU GLU A . n A 1 58 VAL 58 58 58 VAL VAL A . n A 1 59 THR 59 59 59 THR THR A . n A 1 60 GLN 60 60 60 GLN GLN A . n A 1 61 PHE 61 61 61 PHE PHE A . n A 1 62 ILE 62 62 62 ILE ILE A . n A 1 63 LYS 63 63 63 LYS LYS A . n A 1 64 CYS 64 64 64 CYS CYS A . n A 1 65 THR 65 65 65 THR THR A . n A 1 66 SER 66 66 66 SER SER A . n A 1 67 ASN 67 67 67 ASN ASN A . n A 1 68 PRO 68 68 ? ? ? A . n A 1 69 ALA 69 69 ? ? ? A . n A 1 70 GLU 70 70 70 GLU GLU A . n A 1 71 ILE 71 71 71 ILE ILE A . n A 1 72 ALA 72 72 72 ALA ALA A . n A 1 73 MET 73 73 73 MET MET A . n A 1 74 PHE 74 74 74 PHE PHE A . n A 1 75 LEU 75 75 75 LEU LEU A . n A 1 76 GLU 76 76 76 GLU GLU A . n A 1 77 PRO 77 77 77 PRO PRO A . n A 1 78 LEU 78 78 78 LEU LEU A . n A 1 79 ASP 79 79 79 ASP ASP A . n A 1 80 LEU 80 80 80 LEU LEU A . n A 1 81 PRO 81 81 81 PRO PRO A . n A 1 82 ASN 82 82 82 ASN ASN A . n A 1 83 LYS 83 83 83 LYS LYS A . n A 1 84 ARG 84 84 84 ARG ARG A . n A 1 85 VAL 85 85 85 VAL VAL A . n A 1 86 VAL 86 86 86 VAL VAL A . n A 1 87 PHE 87 87 87 PHE PHE A . n A 1 88 LEU 88 88 88 LEU LEU A . n A 1 89 ALA 89 89 89 ALA ALA A . n A 1 90 ILE 90 90 90 ILE ILE A . n A 1 91 ASN 91 91 91 ASN ASN A . n A 1 92 ASP 92 92 92 ASP ASP A . n A 1 93 ASN 93 93 93 ASN ASN A . n A 1 94 SER 94 94 94 SER SER A . n A 1 95 ASN 95 95 95 ASN ASN A . n A 1 96 GLN 96 96 96 GLN GLN A . n A 1 97 ALA 97 97 97 ALA ALA A . n A 1 98 ALA 98 98 98 ALA ALA A . n A 1 99 GLY 99 99 99 GLY GLY A . n A 1 100 GLY 100 100 100 GLY GLY A . n A 1 101 THR 101 101 101 THR THR A . n A 1 102 HIS 102 102 102 HIS HIS A . n A 1 103 TRP 103 103 103 TRP TRP A . n A 1 104 SER 104 104 104 SER SER A . n A 1 105 LEU 105 105 105 LEU LEU A . n A 1 106 LEU 106 106 106 LEU LEU A . n A 1 107 VAL 107 107 107 VAL VAL A . n A 1 108 TYR 108 108 108 TYR TYR A . n A 1 109 LEU 109 109 109 LEU LEU A . n A 1 110 GLN 110 110 110 GLN GLN A . n A 1 111 ASP 111 111 111 ASP ASP A . n A 1 112 LYS 112 112 112 LYS LYS A . n A 1 113 ASN 113 113 113 ASN ASN A . n A 1 114 SER 114 114 114 SER SER A . n A 1 115 PHE 115 115 115 PHE PHE A . n A 1 116 PHE 116 116 116 PHE PHE A . n A 1 117 HIS 117 117 117 HIS HIS A . n A 1 118 TYR 118 118 118 TYR TYR A . n A 1 119 ASP 119 119 119 ASP ASP A . n A 1 120 SER 120 120 120 SER SER A . n A 1 121 HIS 121 121 121 HIS HIS A . n A 1 122 SER 122 122 122 SER SER A . n A 1 123 ARG 123 123 123 ARG ARG A . n A 1 124 SER 124 124 124 SER SER A . n A 1 125 ASN 125 125 125 ASN ASN A . n A 1 126 SER 126 126 126 SER SER A . n A 1 127 VAL 127 127 127 VAL VAL A . n A 1 128 HIS 128 128 128 HIS HIS A . n A 1 129 ALA 129 129 129 ALA ALA A . n A 1 130 LYS 130 130 130 LYS LYS A . n A 1 131 GLN 131 131 131 GLN GLN A . n A 1 132 VAL 132 132 132 VAL VAL A . n A 1 133 ALA 133 133 133 ALA ALA A . n A 1 134 GLU 134 134 134 GLU GLU A . n A 1 135 LYS 135 135 135 LYS LYS A . n A 1 136 LEU 136 136 136 LEU LEU A . n A 1 137 GLU 137 137 137 GLU GLU A . n A 1 138 ALA 138 138 138 ALA ALA A . n A 1 139 PHE 139 139 139 PHE PHE A . n A 1 140 LEU 140 140 140 LEU LEU A . n A 1 141 GLY 141 141 141 GLY GLY A . n A 1 142 ARG 142 142 142 ARG ARG A . n A 1 143 LYS 143 143 143 LYS LYS A . n A 1 144 GLY 144 144 144 GLY GLY A . n A 1 145 ASP 145 145 145 ASP ASP A . n A 1 146 LYS 146 146 146 LYS LYS A . n A 1 147 LEU 147 147 147 LEU LEU A . n A 1 148 ALA 148 148 148 ALA ALA A . n A 1 149 PHE 149 149 149 PHE PHE A . n A 1 150 VAL 150 150 150 VAL VAL A . n A 1 151 GLU 151 151 151 GLU GLU A . n A 1 152 GLU 152 152 152 GLU GLU A . n A 1 153 LYS 153 153 153 LYS LYS A . n A 1 154 ALA 154 154 154 ALA ALA A . n A 1 155 PRO 155 155 155 PRO PRO A . n A 1 156 ALA 156 156 156 ALA ALA A . n A 1 157 GLN 157 157 157 GLN GLN A . n A 1 158 GLN 158 158 158 GLN GLN A . n A 1 159 ASN 159 159 159 ASN ASN A . n A 1 160 SER 160 160 160 SER SER A . n A 1 161 TYR 161 161 161 TYR TYR A . n A 1 162 ASP 162 162 162 ASP ASP A . n A 1 163 CYS 163 163 163 CYS CYS A . n A 1 164 GLY 164 164 164 GLY GLY A . n A 1 165 MET 165 165 165 MET MET A . n A 1 166 TYR 166 166 166 TYR TYR A . n A 1 167 VAL 167 167 167 VAL VAL A . n A 1 168 ILE 168 168 168 ILE ILE A . n A 1 169 CYS 169 169 169 CYS CYS A . n A 1 170 ASN 170 170 170 ASN ASN A . n A 1 171 THR 171 171 171 THR THR A . n A 1 172 GLU 172 172 172 GLU GLU A . n A 1 173 ALA 173 173 173 ALA ALA A . n A 1 174 LEU 174 174 174 LEU LEU A . n A 1 175 CYS 175 175 175 CYS CYS A . n A 1 176 GLN 176 176 176 GLN GLN A . n A 1 177 ASN 177 177 177 ASN ASN A . n A 1 178 PHE 178 178 178 PHE PHE A . n A 1 179 PHE 179 179 179 PHE PHE A . n A 1 180 ARG 180 180 180 ARG ARG A . n A 1 181 GLN 181 181 181 GLN GLN A . n A 1 182 GLN 182 182 182 GLN GLN A . n A 1 183 THR 183 183 183 THR THR A . n A 1 184 GLU 184 184 184 GLU GLU A . n A 1 185 SER 185 185 185 SER SER A . n A 1 186 LEU 186 186 186 LEU LEU A . n A 1 187 LEU 187 187 187 LEU LEU A . n A 1 188 GLN 188 188 188 GLN GLN A . n A 1 189 LEU 189 189 189 LEU LEU A . n A 1 190 LEU 190 190 190 LEU LEU A . n A 1 191 THR 191 191 191 THR THR A . n A 1 192 PRO 192 192 192 PRO PRO A . n A 1 193 ALA 193 193 193 ALA ALA A . n A 1 194 TYR 194 194 194 TYR TYR A . n A 1 195 ILE 195 195 195 ILE ILE A . n A 1 196 THR 196 196 196 THR THR A . n A 1 197 LYS 197 197 197 LYS LYS A . n A 1 198 LYS 198 198 198 LYS LYS A . n A 1 199 ARG 199 199 199 ARG ARG A . n A 1 200 GLY 200 200 200 GLY GLY A . n A 1 201 GLU 201 201 201 GLU GLU A . n A 1 202 TRP 202 202 202 TRP TRP A . n A 1 203 LYS 203 203 203 LYS LYS A . n A 1 204 ASP 204 204 204 ASP ASP A . n A 1 205 LEU 205 205 205 LEU LEU A . n A 1 206 ILE 206 206 206 ILE ILE A . n A 1 207 THR 207 207 207 THR THR A . n A 1 208 THR 208 208 208 THR THR A . n A 1 209 LEU 209 209 209 LEU LEU A . n A 1 210 ALA 210 210 210 ALA ALA A . n A 1 211 LYS 211 211 211 LYS LYS A . n A 1 212 LYS 212 212 ? ? ? A . n B 2 1 MET 1 1 1 MET MET B . n B 2 2 LEU 2 2 2 LEU LEU B . n B 2 3 ILE 3 3 3 ILE ILE B . n B 2 4 LYS 4 4 4 LYS LYS B . n B 2 5 VAL 5 5 5 VAL VAL B . n B 2 6 LYS 6 6 6 LYS LYS B . n B 2 7 THR 7 7 7 THR THR B . n B 2 8 LEU 8 8 8 LEU LEU B . n B 2 9 THR 9 9 9 THR THR B . n B 2 10 GLY 10 10 10 GLY GLY B . n B 2 11 LYS 11 11 11 LYS LYS B . n B 2 12 GLU 12 12 12 GLU GLU B . n B 2 13 ILE 13 13 13 ILE ILE B . n B 2 14 GLU 14 14 14 GLU GLU B . n B 2 15 ILE 15 15 15 ILE ILE B . n B 2 16 ASP 16 16 16 ASP ASP B . n B 2 17 ILE 17 17 17 ILE ILE B . n B 2 18 GLU 18 18 18 GLU GLU B . n B 2 19 PRO 19 19 19 PRO PRO B . n B 2 20 THR 20 20 20 THR THR B . n B 2 21 ASP 21 21 21 ASP ASP B . n B 2 22 LYS 22 22 22 LYS LYS B . n B 2 23 VAL 23 23 23 VAL VAL B . n B 2 24 GLU 24 24 24 GLU GLU B . n B 2 25 ARG 25 25 25 ARG ARG B . n B 2 26 ILE 26 26 26 ILE ILE B . n B 2 27 LYS 27 27 27 LYS LYS B . n B 2 28 GLU 28 28 28 GLU GLU B . n B 2 29 ARG 29 29 29 ARG ARG B . n B 2 30 VAL 30 30 30 VAL VAL B . n B 2 31 GLU 31 31 31 GLU GLU B . n B 2 32 GLU 32 32 32 GLU GLU B . n B 2 33 LYS 33 33 33 LYS LYS B . n B 2 34 GLU 34 34 34 GLU GLU B . n B 2 35 GLY 35 35 35 GLY GLY B . n B 2 36 ILE 36 36 36 ILE ILE B . n B 2 37 PRO 37 37 37 PRO PRO B . n B 2 38 PRO 38 38 38 PRO PRO B . n B 2 39 GLN 39 39 39 GLN GLN B . n B 2 40 GLN 40 40 40 GLN GLN B . n B 2 41 GLN 41 41 41 GLN GLN B . n B 2 42 ARG 42 42 42 ARG ARG B . n B 2 43 LEU 43 43 43 LEU LEU B . n B 2 44 ILE 44 44 44 ILE ILE B . n B 2 45 TYR 45 45 45 TYR TYR B . n B 2 46 SER 46 46 46 SER SER B . n B 2 47 GLY 47 47 47 GLY GLY B . n B 2 48 LYS 48 48 48 LYS LYS B . n B 2 49 GLN 49 49 49 GLN GLN B . n B 2 50 MET 50 50 50 MET MET B . n B 2 51 ASN 51 51 51 ASN ASN B . n B 2 52 ASP 52 52 52 ASP ASP B . n B 2 53 GLU 53 53 53 GLU GLU B . n B 2 54 LYS 54 54 54 LYS LYS B . n B 2 55 THR 55 55 55 THR THR B . n B 2 56 ALA 56 56 56 ALA ALA B . n B 2 57 ALA 57 57 57 ALA ALA B . n B 2 58 ASP 58 58 58 ASP ASP B . n B 2 59 TYR 59 59 59 TYR TYR B . n B 2 60 LYS 60 60 60 LYS LYS B . n B 2 61 ILE 61 61 61 ILE ILE B . n B 2 62 LEU 62 62 62 LEU LEU B . n B 2 63 GLY 63 63 63 GLY GLY B . n B 2 64 GLY 64 64 64 GLY GLY B . n B 2 65 SER 65 65 65 SER SER B . n B 2 66 VAL 66 66 66 VAL VAL B . n B 2 67 LEU 67 67 67 LEU LEU B . n B 2 68 HIS 68 68 68 HIS HIS B . n B 2 69 LEU 69 69 69 LEU LEU B . n B 2 70 VAL 70 70 70 VAL VAL B . n B 2 71 LEU 71 71 71 LEU LEU B . n B 2 72 ALA 72 72 72 ALA ALA B . n B 2 73 LEU 73 73 73 LEU LEU B . n B 2 74 ARG 74 74 74 ARG ARG B . n B 2 75 GLY 75 75 75 GLY GLY B . n B 2 76 GLY 76 76 76 GLY GLY B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_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_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 HOH 1 213 1 HOH TIP A . C 3 HOH 2 214 2 HOH TIP A . C 3 HOH 3 215 3 HOH TIP A . C 3 HOH 4 216 4 HOH TIP A . C 3 HOH 5 217 5 HOH TIP A . C 3 HOH 6 218 6 HOH TIP A . C 3 HOH 7 219 7 HOH TIP A . C 3 HOH 8 220 11 HOH TIP A . C 3 HOH 9 221 12 HOH TIP A . C 3 HOH 10 222 13 HOH TIP A . C 3 HOH 11 223 14 HOH TIP A . C 3 HOH 12 224 15 HOH TIP A . C 3 HOH 13 225 17 HOH TIP A . C 3 HOH 14 226 18 HOH TIP A . C 3 HOH 15 227 19 HOH TIP A . C 3 HOH 16 228 21 HOH TIP A . C 3 HOH 17 229 22 HOH TIP A . C 3 HOH 18 230 23 HOH TIP A . C 3 HOH 19 231 24 HOH TIP A . C 3 HOH 20 232 25 HOH TIP A . C 3 HOH 21 233 26 HOH TIP A . C 3 HOH 22 234 27 HOH TIP A . C 3 HOH 23 235 28 HOH TIP A . C 3 HOH 24 236 30 HOH TIP A . C 3 HOH 25 237 31 HOH TIP A . C 3 HOH 26 238 32 HOH TIP A . C 3 HOH 27 239 33 HOH TIP A . C 3 HOH 28 240 34 HOH TIP A . C 3 HOH 29 241 36 HOH TIP A . C 3 HOH 30 242 38 HOH TIP A . C 3 HOH 31 243 39 HOH TIP A . C 3 HOH 32 244 40 HOH TIP A . C 3 HOH 33 245 41 HOH TIP A . C 3 HOH 34 246 42 HOH TIP A . C 3 HOH 35 247 43 HOH TIP A . C 3 HOH 36 248 44 HOH TIP A . C 3 HOH 37 249 47 HOH TIP A . C 3 HOH 38 250 49 HOH TIP A . C 3 HOH 39 251 51 HOH TIP A . C 3 HOH 40 252 52 HOH TIP A . C 3 HOH 41 253 53 HOH TIP A . C 3 HOH 42 254 54 HOH TIP A . C 3 HOH 43 255 55 HOH TIP A . C 3 HOH 44 256 56 HOH TIP A . C 3 HOH 45 257 57 HOH TIP A . C 3 HOH 46 258 58 HOH TIP A . C 3 HOH 47 259 59 HOH TIP A . C 3 HOH 48 260 60 HOH TIP A . C 3 HOH 49 261 61 HOH TIP A . C 3 HOH 50 262 62 HOH TIP A . C 3 HOH 51 263 64 HOH TIP A . C 3 HOH 52 264 65 HOH TIP A . C 3 HOH 53 265 66 HOH TIP A . C 3 HOH 54 266 67 HOH TIP A . C 3 HOH 55 267 68 HOH TIP A . C 3 HOH 56 268 69 HOH TIP A . C 3 HOH 57 269 72 HOH TIP A . C 3 HOH 58 270 75 HOH TIP A . C 3 HOH 59 271 76 HOH TIP A . C 3 HOH 60 272 77 HOH TIP A . C 3 HOH 61 273 78 HOH TIP A . C 3 HOH 62 274 79 HOH TIP A . C 3 HOH 63 275 81 HOH TIP A . C 3 HOH 64 276 82 HOH TIP A . C 3 HOH 65 277 83 HOH TIP A . C 3 HOH 66 278 84 HOH TIP A . C 3 HOH 67 279 85 HOH TIP A . C 3 HOH 68 280 87 HOH TIP A . C 3 HOH 69 281 88 HOH TIP A . C 3 HOH 70 282 89 HOH TIP A . C 3 HOH 71 283 91 HOH TIP A . C 3 HOH 72 284 92 HOH TIP A . C 3 HOH 73 285 93 HOH TIP A . C 3 HOH 74 286 95 HOH TIP A . C 3 HOH 75 287 96 HOH TIP A . C 3 HOH 76 288 97 HOH TIP A . C 3 HOH 77 289 98 HOH TIP A . C 3 HOH 78 290 100 HOH TIP A . D 3 HOH 1 77 8 HOH TIP B . D 3 HOH 2 78 9 HOH TIP B . D 3 HOH 3 79 10 HOH TIP B . D 3 HOH 4 80 16 HOH TIP B . D 3 HOH 5 81 20 HOH TIP B . D 3 HOH 6 82 29 HOH TIP B . D 3 HOH 7 83 35 HOH TIP B . D 3 HOH 8 84 37 HOH TIP B . D 3 HOH 9 85 45 HOH TIP B . D 3 HOH 10 86 46 HOH TIP B . D 3 HOH 11 87 48 HOH TIP B . D 3 HOH 12 88 50 HOH TIP B . D 3 HOH 13 89 63 HOH TIP B . D 3 HOH 14 90 70 HOH TIP B . D 3 HOH 15 91 71 HOH TIP B . D 3 HOH 16 92 73 HOH TIP B . D 3 HOH 17 93 74 HOH TIP B . D 3 HOH 18 94 80 HOH TIP B . D 3 HOH 19 95 86 HOH TIP B . D 3 HOH 20 96 90 HOH TIP B . D 3 HOH 21 97 94 HOH TIP B . D 3 HOH 22 98 99 HOH TIP B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 3000 ? 1 MORE -10 ? 1 'SSA (A^2)' 12520 ? # _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] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 275 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2004-12-21 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 1.1 ? 1 DENZO 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 SOLVE phasing . ? 4 # _pdbx_database_remark.id 999 _pdbx_database_remark.text ;SEQUENCE There is a covalent bond between CYS 163 chain A and GLY 76 chain B. ; # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 MET A 9 ? ? 61.77 -120.87 2 1 PRO A 24 ? ? -91.31 37.78 3 1 SER A 42 ? ? -130.24 -80.78 4 1 SER A 66 ? ? -94.62 32.72 5 1 SER A 122 ? ? 5.66 84.48 6 1 ARG A 123 ? ? 56.60 18.85 7 1 GLU A 137 ? ? -65.74 17.34 8 1 ALA A 138 ? ? -111.46 -74.32 9 1 ARG A 142 ? ? -39.59 149.63 10 1 ASP A 145 ? ? -117.43 -166.29 11 1 GLN A 181 ? ? 53.25 19.48 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET 1 ? A MET 1 2 1 Y 1 A PRO 68 ? A PRO 68 3 1 Y 1 A ALA 69 ? A ALA 69 4 1 Y 1 A LYS 212 ? A LYS 212 # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #