data_1Y8X # _entry.id 1Y8X # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.351 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1Y8X pdb_00001y8x 10.2210/pdb1y8x/pdb RCSB RCSB031264 ? ? WWPDB D_1000031264 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1Y8X _pdbx_database_status.recvd_initial_deposition_date 2004-12-13 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Huang, D.T.' 1 'Paydar, A.' 2 'Zhuang, M.' 3 'Waddell, M.B.' 4 'Holton, J.M.' 5 'Schulman, B.A.' 6 # _citation.id primary _citation.title ;Structural basis for recruitment of Ubc12 by an E2 binding domain in NEDD8's E1. ; _citation.journal_abbrev Mol.Cell _citation.journal_volume 17 _citation.page_first 341 _citation.page_last 350 _citation.year 2005 _citation.journal_id_ASTM MOCEFL _citation.country US _citation.journal_id_ISSN 1097-2765 _citation.journal_id_CSD 2168 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15694336 _citation.pdbx_database_id_DOI 10.1016/j.molcel.2004.12.020 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huang, D.T.' 1 ? primary 'Paydar, A.' 2 ? primary 'Zhuang, M.' 3 ? primary 'Waddell, M.B.' 4 ? primary 'Holton, J.M.' 5 ? primary 'Schulman, B.A.' 6 ? # _cell.entry_id 1Y8X _cell.length_a 40.606 _cell.length_b 61.518 _cell.length_c 125.938 _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 1Y8X _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _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 'Ubiquitin-conjugating enzyme E2 M' 18485.615 1 6.3.2.19 ? ? ? 2 polymer man 'Ubiquitin-activating enzyme E1C' 10856.974 1 ? ? ? ? 3 water nat water 18.015 112 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'Ubiquitin-protein ligase M, Ubiquitin carrier protein M, Nedd8-conjugating enzyme Ubc12' 2 'Nedd8-activating enzyme E1C, Ubiquitin-activating enzyme 3 homolog' # 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 yes ;GS(MSE)ASAAQLRIQKDINELNLPKTCDISFSDPDDLLNFKLVICPDEGFYKSGKFVFSFKVGQGYPHDPPKVKCET (MSE)VYHPNIDLEGNVCLNILREDWKPVLTINSIIYGLQYLFLEPNPEDPLNKEAAEVLQNNRRLFEQNVQRS(MSE)R GGYIGSTYFERCLK ; ;GSMASAAQLRIQKDINELNLPKTCDISFSDPDDLLNFKLVICPDEGFYKSGKFVFSFKVGQGYPHDPPKVKCETMVYHPN IDLEGNVCLNILREDWKPVLTINSIIYGLQYLFLEPNPEDPLNKEAAEVLQNNRRLFEQNVQRSMRGGYIGSTYFERCLK ; A ? 2 'polypeptide(L)' no yes ;GSSQLPQNIQFSPSAKLQEVLDYLTNSASLQ(MSE)KSPAITATLEGKNRTLY(MSE)QSVTSIEERTRPNLSKTLKELG LVDGQELAVADVTTPQTVLFKLHFTS ; ;GSSQLPQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELA VADVTTPQTVLFKLHFTS ; B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 SER n 1 3 MSE n 1 4 ALA n 1 5 SER n 1 6 ALA n 1 7 ALA n 1 8 GLN n 1 9 LEU n 1 10 ARG n 1 11 ILE n 1 12 GLN n 1 13 LYS n 1 14 ASP n 1 15 ILE n 1 16 ASN n 1 17 GLU n 1 18 LEU n 1 19 ASN n 1 20 LEU n 1 21 PRO n 1 22 LYS n 1 23 THR n 1 24 CYS n 1 25 ASP n 1 26 ILE n 1 27 SER n 1 28 PHE n 1 29 SER n 1 30 ASP n 1 31 PRO n 1 32 ASP n 1 33 ASP n 1 34 LEU n 1 35 LEU n 1 36 ASN n 1 37 PHE n 1 38 LYS n 1 39 LEU n 1 40 VAL n 1 41 ILE n 1 42 CYS n 1 43 PRO n 1 44 ASP n 1 45 GLU n 1 46 GLY n 1 47 PHE n 1 48 TYR n 1 49 LYS n 1 50 SER n 1 51 GLY n 1 52 LYS n 1 53 PHE n 1 54 VAL n 1 55 PHE n 1 56 SER n 1 57 PHE n 1 58 LYS n 1 59 VAL n 1 60 GLY n 1 61 GLN n 1 62 GLY n 1 63 TYR n 1 64 PRO n 1 65 HIS n 1 66 ASP n 1 67 PRO n 1 68 PRO n 1 69 LYS n 1 70 VAL n 1 71 LYS n 1 72 CYS n 1 73 GLU n 1 74 THR n 1 75 MSE n 1 76 VAL n 1 77 TYR n 1 78 HIS n 1 79 PRO n 1 80 ASN n 1 81 ILE n 1 82 ASP n 1 83 LEU n 1 84 GLU n 1 85 GLY n 1 86 ASN n 1 87 VAL n 1 88 CYS n 1 89 LEU n 1 90 ASN n 1 91 ILE n 1 92 LEU n 1 93 ARG n 1 94 GLU n 1 95 ASP n 1 96 TRP n 1 97 LYS n 1 98 PRO n 1 99 VAL n 1 100 LEU n 1 101 THR n 1 102 ILE n 1 103 ASN n 1 104 SER n 1 105 ILE n 1 106 ILE n 1 107 TYR n 1 108 GLY n 1 109 LEU n 1 110 GLN n 1 111 TYR n 1 112 LEU n 1 113 PHE n 1 114 LEU n 1 115 GLU n 1 116 PRO n 1 117 ASN n 1 118 PRO n 1 119 GLU n 1 120 ASP n 1 121 PRO n 1 122 LEU n 1 123 ASN n 1 124 LYS n 1 125 GLU n 1 126 ALA n 1 127 ALA n 1 128 GLU n 1 129 VAL n 1 130 LEU n 1 131 GLN n 1 132 ASN n 1 133 ASN n 1 134 ARG n 1 135 ARG n 1 136 LEU n 1 137 PHE n 1 138 GLU n 1 139 GLN n 1 140 ASN n 1 141 VAL n 1 142 GLN n 1 143 ARG n 1 144 SER n 1 145 MSE n 1 146 ARG n 1 147 GLY n 1 148 GLY n 1 149 TYR n 1 150 ILE n 1 151 GLY n 1 152 SER n 1 153 THR n 1 154 TYR n 1 155 PHE n 1 156 GLU n 1 157 ARG n 1 158 CYS n 1 159 LEU n 1 160 LYS n 2 1 GLY n 2 2 SER n 2 3 SER n 2 4 GLN n 2 5 LEU n 2 6 PRO n 2 7 GLN n 2 8 ASN n 2 9 ILE n 2 10 GLN n 2 11 PHE n 2 12 SER n 2 13 PRO n 2 14 SER n 2 15 ALA n 2 16 LYS n 2 17 LEU n 2 18 GLN n 2 19 GLU n 2 20 VAL n 2 21 LEU n 2 22 ASP n 2 23 TYR n 2 24 LEU n 2 25 THR n 2 26 ASN n 2 27 SER n 2 28 ALA n 2 29 SER n 2 30 LEU n 2 31 GLN n 2 32 MSE n 2 33 LYS n 2 34 SER n 2 35 PRO n 2 36 ALA n 2 37 ILE n 2 38 THR n 2 39 ALA n 2 40 THR n 2 41 LEU n 2 42 GLU n 2 43 GLY n 2 44 LYS n 2 45 ASN n 2 46 ARG n 2 47 THR n 2 48 LEU n 2 49 TYR n 2 50 MSE n 2 51 GLN n 2 52 SER n 2 53 VAL n 2 54 THR n 2 55 SER n 2 56 ILE n 2 57 GLU n 2 58 GLU n 2 59 ARG n 2 60 THR n 2 61 ARG n 2 62 PRO n 2 63 ASN n 2 64 LEU n 2 65 SER n 2 66 LYS n 2 67 THR n 2 68 LEU n 2 69 LYS n 2 70 GLU n 2 71 LEU n 2 72 GLY n 2 73 LEU n 2 74 VAL n 2 75 ASP n 2 76 GLY n 2 77 GLN n 2 78 GLU n 2 79 LEU n 2 80 ALA n 2 81 VAL n 2 82 ALA n 2 83 ASP n 2 84 VAL n 2 85 THR n 2 86 THR n 2 87 PRO n 2 88 GLN n 2 89 THR n 2 90 VAL n 2 91 LEU n 2 92 PHE n 2 93 LYS n 2 94 LEU n 2 95 HIS n 2 96 PHE n 2 97 THR n 2 98 SER 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 'UBE2M, UBC12' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 Escherichia ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? ? human Homo 'UBE1C, UBA3' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 Escherichia ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # 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 UBC12_HUMAN P61081 1 ;ASAAQLRIQKDINELNLPKTCDISFSDPDDLLNFKLVICPDEGFYKSGKFVFSFKVGQGYPHDPPKVKCETMVYHPNIDL EGNVCLNILREDWKPVLTINSIIYGLQYLFLEPNPEDPLNKEAAEVLQNNRRLFEQNVQRSMRGGYIGSTYFERCLK ; 27 ? 2 UNP UBA3_HUMAN Q8TBC4 2 ;SQLPQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYLQSVTSIEERTRPNLSKTLKELGLVDGQELAVA DVTTPQTVLFKLHFTS ; 368 ? # 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 1Y8X A 4 ? 160 ? P61081 27 ? 183 ? 27 183 2 2 1Y8X B 3 ? 98 ? Q8TBC4 368 ? 463 ? 347 442 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 1Y8X GLY A 1 ? UNP P61081 ? ? 'cloning artifact' 24 1 1 1Y8X SER A 2 ? UNP P61081 ? ? 'cloning artifact' 25 2 1 1Y8X MSE A 3 ? UNP P61081 ? ? 'cloning artifact' 26 3 1 1Y8X MSE A 75 ? UNP P61081 MET 98 'modified residue' 98 4 1 1Y8X MSE A 145 ? UNP P61081 MET 168 'modified residue' 168 5 2 1Y8X GLY B 1 ? UNP Q8TBC4 ? ? 'cloning artifact' 345 6 2 1Y8X SER B 2 ? UNP Q8TBC4 ? ? 'cloning artifact' 346 7 2 1Y8X MSE B 32 ? UNP Q8TBC4 MET 397 'modified residue' 376 8 2 1Y8X MSE B 50 ? UNP Q8TBC4 LEU 415 'engineered mutation' 394 9 # 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 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 1Y8X _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.68 _exptl_crystal.density_percent_sol 54.11 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 ? ? 1 2 ? ? 1 3 ? ? 1 4 ? ? 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.979 1.0 2 0.9792 1.0 3 0.95 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list 1 SYNCHROTRON 'ALS BEAMLINE 8.3.1' ALS 8.3.1 0.979 0.979,0.9792,0.95 2 SYNCHROTRON 'NSLS BEAMLINE X12B' NSLS X12B 0.979 0.979,0.9792,0.95 3 SYNCHROTRON 'NSLS BEAMLINE X25' NSLS X25 0.979 0.979,0.9792,0.95 4 SYNCHROTRON 'APS BEAMLINE 19-ID' APS 19-ID 0.979 0.979,0.9792,0.95 # _reflns.entry_id 1Y8X _reflns.number_all 12655 _reflns.number_obs 12655 _reflns.percent_possible_obs ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 2.4 _reflns.d_resolution_low 50 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.099 _reflns.pdbx_netI_over_sigmaI 38.3 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 11.4 _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 # _refine.entry_id 1Y8X _refine.ls_d_res_high 2.4 _refine.ls_d_res_low 50 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 12655 _refine.ls_number_reflns_obs 12655 _refine.ls_number_reflns_R_free 638 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_work 0.242 _refine.ls_R_factor_R_free 0.259 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_starting_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details Random _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values 'Engh & Huber' _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.details ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2002 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 112 _refine_hist.number_atoms_total 2114 _refine_hist.d_res_high 2.4 _refine_hist.d_res_low 50 # _struct.entry_id 1Y8X _struct.title ;Structural basis for recruitment of Ubc12 by an E2-binding domain in NEDD8's E1 ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1Y8X _struct_keywords.pdbx_keywords LIGASE _struct_keywords.text 'Ubiquitin-conjugating enzyme E2 M, LIGASE' # 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 SER A 5 ? GLU A 17 ? SER A 28 GLU A 40 1 ? 13 HELX_P HELX_P2 2 LEU A 89 ? ARG A 93 ? LEU A 112 ARG A 116 5 ? 5 HELX_P HELX_P3 3 THR A 101 ? GLU A 115 ? THR A 124 GLU A 138 1 ? 15 HELX_P HELX_P4 4 ASN A 123 ? ASN A 132 ? ASN A 146 ASN A 155 1 ? 10 HELX_P HELX_P5 5 ASN A 133 ? GLY A 147 ? ASN A 156 GLY A 170 1 ? 15 HELX_P HELX_P6 6 LYS B 16 ? SER B 27 ? LYS B 360 SER B 371 1 ? 12 HELX_P HELX_P7 7 VAL B 53 ? LYS B 66 ? VAL B 397 LYS B 410 1 ? 14 HELX_P HELX_P8 8 LEU B 68 ? GLY B 72 ? LEU B 412 GLY B 416 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _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 _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_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_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 _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A SER 2 C ? ? ? 1_555 A MSE 3 N ? ? A SER 25 A MSE 26 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale2 covale both ? A MSE 3 C ? ? ? 1_555 A ALA 4 N ? ? A MSE 26 A ALA 27 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale3 covale both ? A THR 74 C ? ? ? 1_555 A MSE 75 N ? ? A THR 97 A MSE 98 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale4 covale both ? A MSE 75 C ? ? ? 1_555 A VAL 76 N ? ? A MSE 98 A VAL 99 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale5 covale both ? A SER 144 C ? ? ? 1_555 A MSE 145 N ? ? A SER 167 A MSE 168 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale6 covale both ? A MSE 145 C ? ? ? 1_555 A ARG 146 N ? ? A MSE 168 A ARG 169 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale7 covale both ? B GLN 31 C ? ? ? 1_555 B MSE 32 N ? ? B GLN 375 B MSE 376 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale8 covale both ? B MSE 32 C ? ? ? 1_555 B LYS 33 N ? ? B MSE 376 B LYS 377 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale9 covale both ? B TYR 49 C ? ? ? 1_555 B MSE 50 N ? ? B TYR 393 B MSE 394 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale10 covale both ? B MSE 50 C ? ? ? 1_555 B GLN 51 N ? ? B MSE 394 B GLN 395 1_555 ? ? ? ? ? ? ? 1.328 ? ? # _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 TYR _struct_mon_prot_cis.label_seq_id 63 _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 TYR _struct_mon_prot_cis.auth_seq_id 86 _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 64 _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 87 _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 -2.43 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 2 ? C ? 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 A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel C 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 CYS A 24 ? SER A 27 ? CYS A 47 SER A 50 A 2 ASN A 36 ? ILE A 41 ? ASN A 59 ILE A 64 A 3 PHE A 53 ? LYS A 58 ? PHE A 76 LYS A 81 A 4 LYS A 69 ? CYS A 72 ? LYS A 92 CYS A 95 B 1 GLY A 148 ? ILE A 150 ? GLY A 171 ILE A 173 B 2 THR A 153 ? PHE A 155 ? THR A 176 PHE A 178 C 1 ILE B 9 ? GLN B 10 ? ILE B 353 GLN B 354 C 2 VAL B 90 ? HIS B 95 ? VAL B 434 HIS B 439 C 3 GLU B 78 ? ALA B 82 ? GLU B 422 ALA B 426 C 4 ALA B 36 ? LEU B 41 ? ALA B 380 LEU B 385 C 5 LYS B 44 ? TYR B 49 ? LYS B 388 TYR B 393 # 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 SER A 27 ? N SER A 50 O LYS A 38 ? O LYS A 61 A 2 3 N ILE A 41 ? N ILE A 64 O PHE A 53 ? O PHE A 76 A 3 4 N LYS A 58 ? N LYS A 81 O LYS A 69 ? O LYS A 92 B 1 2 N GLY A 148 ? N GLY A 171 O PHE A 155 ? O PHE A 178 C 1 2 N ILE B 9 ? N ILE B 353 O LYS B 93 ? O LYS B 437 C 2 3 O PHE B 92 ? O PHE B 436 N LEU B 79 ? N LEU B 423 C 3 4 O ALA B 82 ? O ALA B 426 N ALA B 36 ? N ALA B 380 C 4 5 N ALA B 39 ? N ALA B 383 O ARG B 46 ? O ARG B 390 # _database_PDB_matrix.entry_id 1Y8X _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 1Y8X _atom_sites.fract_transf_matrix[1][1] 0.024627 _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] 0.016255 _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] 0.007940 _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 SE # 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 GLY 1 24 24 GLY GLY A . n A 1 2 SER 2 25 25 SER SER A . n A 1 3 MSE 3 26 26 MSE MSE A . n A 1 4 ALA 4 27 27 ALA ALA A . n A 1 5 SER 5 28 28 SER SER A . n A 1 6 ALA 6 29 29 ALA ALA A . n A 1 7 ALA 7 30 30 ALA ALA A . n A 1 8 GLN 8 31 31 GLN GLN A . n A 1 9 LEU 9 32 32 LEU LEU A . n A 1 10 ARG 10 33 33 ARG ARG A . n A 1 11 ILE 11 34 34 ILE ILE A . n A 1 12 GLN 12 35 35 GLN GLN A . n A 1 13 LYS 13 36 36 LYS LYS A . n A 1 14 ASP 14 37 37 ASP ASP A . n A 1 15 ILE 15 38 38 ILE ILE A . n A 1 16 ASN 16 39 39 ASN ASN A . n A 1 17 GLU 17 40 40 GLU GLU A . n A 1 18 LEU 18 41 41 LEU LEU A . n A 1 19 ASN 19 42 42 ASN ASN A . n A 1 20 LEU 20 43 43 LEU LEU A . n A 1 21 PRO 21 44 44 PRO PRO A . n A 1 22 LYS 22 45 45 LYS LYS A . n A 1 23 THR 23 46 46 THR THR A . n A 1 24 CYS 24 47 47 CYS CYS A . n A 1 25 ASP 25 48 48 ASP ASP A . n A 1 26 ILE 26 49 49 ILE ILE A . n A 1 27 SER 27 50 50 SER SER A . n A 1 28 PHE 28 51 51 PHE PHE A . n A 1 29 SER 29 52 52 SER SER A . n A 1 30 ASP 30 53 53 ASP ASP A . n A 1 31 PRO 31 54 54 PRO PRO A . n A 1 32 ASP 32 55 55 ASP ASP A . n A 1 33 ASP 33 56 56 ASP ASP A . n A 1 34 LEU 34 57 57 LEU LEU A . n A 1 35 LEU 35 58 58 LEU LEU A . n A 1 36 ASN 36 59 59 ASN ASN A . n A 1 37 PHE 37 60 60 PHE PHE A . n A 1 38 LYS 38 61 61 LYS LYS A . n A 1 39 LEU 39 62 62 LEU LEU A . n A 1 40 VAL 40 63 63 VAL VAL A . n A 1 41 ILE 41 64 64 ILE ILE A . n A 1 42 CYS 42 65 65 CYS CYS A . n A 1 43 PRO 43 66 66 PRO PRO A . n A 1 44 ASP 44 67 67 ASP ASP A . n A 1 45 GLU 45 68 68 GLU GLU A . n A 1 46 GLY 46 69 69 GLY GLY A . n A 1 47 PHE 47 70 70 PHE PHE A . n A 1 48 TYR 48 71 71 TYR TYR A . n A 1 49 LYS 49 72 72 LYS LYS A . n A 1 50 SER 50 73 73 SER SER A . n A 1 51 GLY 51 74 74 GLY GLY A . n A 1 52 LYS 52 75 75 LYS LYS A . n A 1 53 PHE 53 76 76 PHE PHE A . n A 1 54 VAL 54 77 77 VAL VAL A . n A 1 55 PHE 55 78 78 PHE PHE A . n A 1 56 SER 56 79 79 SER SER A . n A 1 57 PHE 57 80 80 PHE PHE A . n A 1 58 LYS 58 81 81 LYS LYS A . n A 1 59 VAL 59 82 82 VAL VAL A . n A 1 60 GLY 60 83 83 GLY GLY A . n A 1 61 GLN 61 84 84 GLN GLN A . n A 1 62 GLY 62 85 85 GLY GLY A . n A 1 63 TYR 63 86 86 TYR TYR A . n A 1 64 PRO 64 87 87 PRO PRO A . n A 1 65 HIS 65 88 88 HIS HIS A . n A 1 66 ASP 66 89 89 ASP ASP A . n A 1 67 PRO 67 90 90 PRO PRO A . n A 1 68 PRO 68 91 91 PRO PRO A . n A 1 69 LYS 69 92 92 LYS LYS A . n A 1 70 VAL 70 93 93 VAL VAL A . n A 1 71 LYS 71 94 94 LYS LYS A . n A 1 72 CYS 72 95 95 CYS CYS A . n A 1 73 GLU 73 96 96 GLU GLU A . n A 1 74 THR 74 97 97 THR THR A . n A 1 75 MSE 75 98 98 MSE MSE A . n A 1 76 VAL 76 99 99 VAL VAL A . n A 1 77 TYR 77 100 100 TYR TYR A . n A 1 78 HIS 78 101 101 HIS HIS A . n A 1 79 PRO 79 102 102 PRO PRO A . n A 1 80 ASN 80 103 103 ASN ASN A . n A 1 81 ILE 81 104 104 ILE ILE A . n A 1 82 ASP 82 105 105 ASP ASP A . n A 1 83 LEU 83 106 106 LEU LEU A . n A 1 84 GLU 84 107 107 GLU GLU A . n A 1 85 GLY 85 108 108 GLY GLY A . n A 1 86 ASN 86 109 109 ASN ASN A . n A 1 87 VAL 87 110 110 VAL VAL A . n A 1 88 CYS 88 111 111 CYS CYS A . n A 1 89 LEU 89 112 112 LEU LEU A . n A 1 90 ASN 90 113 113 ASN ASN A . n A 1 91 ILE 91 114 114 ILE ILE A . n A 1 92 LEU 92 115 115 LEU LEU A . n A 1 93 ARG 93 116 116 ARG ARG A . n A 1 94 GLU 94 117 117 GLU GLU A . n A 1 95 ASP 95 118 118 ASP ASP A . n A 1 96 TRP 96 119 119 TRP TRP A . n A 1 97 LYS 97 120 120 LYS LYS A . n A 1 98 PRO 98 121 121 PRO PRO A . n A 1 99 VAL 99 122 122 VAL VAL A . n A 1 100 LEU 100 123 123 LEU LEU A . n A 1 101 THR 101 124 124 THR THR A . n A 1 102 ILE 102 125 125 ILE ILE A . n A 1 103 ASN 103 126 126 ASN ASN A . n A 1 104 SER 104 127 127 SER SER A . n A 1 105 ILE 105 128 128 ILE ILE A . n A 1 106 ILE 106 129 129 ILE ILE A . n A 1 107 TYR 107 130 130 TYR TYR A . n A 1 108 GLY 108 131 131 GLY GLY A . n A 1 109 LEU 109 132 132 LEU LEU A . n A 1 110 GLN 110 133 133 GLN GLN A . n A 1 111 TYR 111 134 134 TYR TYR A . n A 1 112 LEU 112 135 135 LEU LEU A . n A 1 113 PHE 113 136 136 PHE PHE A . n A 1 114 LEU 114 137 137 LEU LEU A . n A 1 115 GLU 115 138 138 GLU GLU A . n A 1 116 PRO 116 139 139 PRO PRO A . n A 1 117 ASN 117 140 140 ASN ASN A . n A 1 118 PRO 118 141 141 PRO PRO A . n A 1 119 GLU 119 142 142 GLU GLU A . n A 1 120 ASP 120 143 143 ASP ASP A . n A 1 121 PRO 121 144 144 PRO PRO A . n A 1 122 LEU 122 145 145 LEU LEU A . n A 1 123 ASN 123 146 146 ASN ASN A . n A 1 124 LYS 124 147 147 LYS LYS A . n A 1 125 GLU 125 148 148 GLU GLU A . n A 1 126 ALA 126 149 149 ALA ALA A . n A 1 127 ALA 127 150 150 ALA ALA A . n A 1 128 GLU 128 151 151 GLU GLU A . n A 1 129 VAL 129 152 152 VAL VAL A . n A 1 130 LEU 130 153 153 LEU LEU A . n A 1 131 GLN 131 154 154 GLN GLN A . n A 1 132 ASN 132 155 155 ASN ASN A . n A 1 133 ASN 133 156 156 ASN ASN A . n A 1 134 ARG 134 157 157 ARG ARG A . n A 1 135 ARG 135 158 158 ARG ARG A . n A 1 136 LEU 136 159 159 LEU LEU A . n A 1 137 PHE 137 160 160 PHE PHE A . n A 1 138 GLU 138 161 161 GLU GLU A . n A 1 139 GLN 139 162 162 GLN GLN A . n A 1 140 ASN 140 163 163 ASN ASN A . n A 1 141 VAL 141 164 164 VAL VAL A . n A 1 142 GLN 142 165 165 GLN GLN A . n A 1 143 ARG 143 166 166 ARG ARG A . n A 1 144 SER 144 167 167 SER SER A . n A 1 145 MSE 145 168 168 MSE MSE A . n A 1 146 ARG 146 169 169 ARG ARG A . n A 1 147 GLY 147 170 170 GLY GLY A . n A 1 148 GLY 148 171 171 GLY GLY A . n A 1 149 TYR 149 172 172 TYR TYR A . n A 1 150 ILE 150 173 173 ILE ILE A . n A 1 151 GLY 151 174 174 GLY GLY A . n A 1 152 SER 152 175 175 SER SER A . n A 1 153 THR 153 176 176 THR THR A . n A 1 154 TYR 154 177 177 TYR TYR A . n A 1 155 PHE 155 178 178 PHE PHE A . n A 1 156 GLU 156 179 179 GLU GLU A . n A 1 157 ARG 157 180 180 ARG ARG A . n A 1 158 CYS 158 181 181 CYS CYS A . n A 1 159 LEU 159 182 182 LEU LEU A . n A 1 160 LYS 160 183 183 LYS LYS A . n B 2 1 GLY 1 345 ? ? ? B . n B 2 2 SER 2 346 ? ? ? B . n B 2 3 SER 3 347 ? ? ? B . n B 2 4 GLN 4 348 ? ? ? B . n B 2 5 LEU 5 349 349 LEU LEU B . n B 2 6 PRO 6 350 350 PRO PRO B . n B 2 7 GLN 7 351 351 GLN GLN B . n B 2 8 ASN 8 352 352 ASN ASN B . n B 2 9 ILE 9 353 353 ILE ILE B . n B 2 10 GLN 10 354 354 GLN GLN B . n B 2 11 PHE 11 355 355 PHE PHE B . n B 2 12 SER 12 356 356 SER SER B . n B 2 13 PRO 13 357 357 PRO PRO B . n B 2 14 SER 14 358 358 SER SER B . n B 2 15 ALA 15 359 359 ALA ALA B . n B 2 16 LYS 16 360 360 LYS LYS B . n B 2 17 LEU 17 361 361 LEU LEU B . n B 2 18 GLN 18 362 362 GLN GLN B . n B 2 19 GLU 19 363 363 GLU GLU B . n B 2 20 VAL 20 364 364 VAL VAL B . n B 2 21 LEU 21 365 365 LEU LEU B . n B 2 22 ASP 22 366 366 ASP ASP B . n B 2 23 TYR 23 367 367 TYR TYR B . n B 2 24 LEU 24 368 368 LEU LEU B . n B 2 25 THR 25 369 369 THR THR B . n B 2 26 ASN 26 370 370 ASN ASN B . n B 2 27 SER 27 371 371 SER SER B . n B 2 28 ALA 28 372 372 ALA ALA B . n B 2 29 SER 29 373 373 SER SER B . n B 2 30 LEU 30 374 374 LEU LEU B . n B 2 31 GLN 31 375 375 GLN GLN B . n B 2 32 MSE 32 376 376 MSE MSE B . n B 2 33 LYS 33 377 377 LYS LYS B . n B 2 34 SER 34 378 378 SER SER B . n B 2 35 PRO 35 379 379 PRO PRO B . n B 2 36 ALA 36 380 380 ALA ALA B . n B 2 37 ILE 37 381 381 ILE ILE B . n B 2 38 THR 38 382 382 THR THR B . n B 2 39 ALA 39 383 383 ALA ALA B . n B 2 40 THR 40 384 384 THR THR B . n B 2 41 LEU 41 385 385 LEU LEU B . n B 2 42 GLU 42 386 386 GLU GLU B . n B 2 43 GLY 43 387 387 GLY GLY B . n B 2 44 LYS 44 388 388 LYS LYS B . n B 2 45 ASN 45 389 389 ASN ASN B . n B 2 46 ARG 46 390 390 ARG ARG B . n B 2 47 THR 47 391 391 THR THR B . n B 2 48 LEU 48 392 392 LEU LEU B . n B 2 49 TYR 49 393 393 TYR TYR B . n B 2 50 MSE 50 394 394 MSE MSE B . n B 2 51 GLN 51 395 395 GLN GLN B . n B 2 52 SER 52 396 396 SER SER B . n B 2 53 VAL 53 397 397 VAL VAL B . n B 2 54 THR 54 398 398 THR THR B . n B 2 55 SER 55 399 399 SER SER B . n B 2 56 ILE 56 400 400 ILE ILE B . n B 2 57 GLU 57 401 401 GLU GLU B . n B 2 58 GLU 58 402 402 GLU GLU B . n B 2 59 ARG 59 403 403 ARG ARG B . n B 2 60 THR 60 404 404 THR THR B . n B 2 61 ARG 61 405 405 ARG ARG B . n B 2 62 PRO 62 406 406 PRO PRO B . n B 2 63 ASN 63 407 407 ASN ASN B . n B 2 64 LEU 64 408 408 LEU LEU B . n B 2 65 SER 65 409 409 SER SER B . n B 2 66 LYS 66 410 410 LYS LYS B . n B 2 67 THR 67 411 411 THR THR B . n B 2 68 LEU 68 412 412 LEU LEU B . n B 2 69 LYS 69 413 413 LYS LYS B . n B 2 70 GLU 70 414 414 GLU GLU B . n B 2 71 LEU 71 415 415 LEU LEU B . n B 2 72 GLY 72 416 416 GLY GLY B . n B 2 73 LEU 73 417 417 LEU LEU B . n B 2 74 VAL 74 418 418 VAL VAL B . n B 2 75 ASP 75 419 419 ASP ASP B . n B 2 76 GLY 76 420 420 GLY GLY B . n B 2 77 GLN 77 421 421 GLN GLN B . n B 2 78 GLU 78 422 422 GLU GLU B . n B 2 79 LEU 79 423 423 LEU LEU B . n B 2 80 ALA 80 424 424 ALA ALA B . n B 2 81 VAL 81 425 425 VAL VAL B . n B 2 82 ALA 82 426 426 ALA ALA B . n B 2 83 ASP 83 427 427 ASP ASP B . n B 2 84 VAL 84 428 428 VAL VAL B . n B 2 85 THR 85 429 429 THR THR B . n B 2 86 THR 86 430 430 THR THR B . n B 2 87 PRO 87 431 431 PRO PRO B . n B 2 88 GLN 88 432 432 GLN GLN B . n B 2 89 THR 89 433 433 THR THR B . n B 2 90 VAL 90 434 434 VAL VAL B . n B 2 91 LEU 91 435 435 LEU LEU B . n B 2 92 PHE 92 436 436 PHE PHE B . n B 2 93 LYS 93 437 437 LYS LYS B . n B 2 94 LEU 94 438 438 LEU LEU B . n B 2 95 HIS 95 439 439 HIS HIS B . n B 2 96 PHE 96 440 440 PHE PHE B . n B 2 97 THR 97 441 ? ? ? B . n B 2 98 SER 98 442 ? ? ? 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 1 184 1 HOH HOH A . C 3 HOH 2 185 2 HOH HOH A . C 3 HOH 3 186 3 HOH HOH A . C 3 HOH 4 187 4 HOH HOH A . C 3 HOH 5 188 5 HOH HOH A . C 3 HOH 6 189 6 HOH HOH A . C 3 HOH 7 190 7 HOH HOH A . C 3 HOH 8 191 8 HOH HOH A . C 3 HOH 9 192 9 HOH HOH A . C 3 HOH 10 193 10 HOH HOH A . C 3 HOH 11 194 11 HOH HOH A . C 3 HOH 12 195 12 HOH HOH A . C 3 HOH 13 196 13 HOH HOH A . C 3 HOH 14 197 14 HOH HOH A . C 3 HOH 15 198 15 HOH HOH A . C 3 HOH 16 199 16 HOH HOH A . C 3 HOH 17 200 18 HOH HOH A . C 3 HOH 18 201 19 HOH HOH A . C 3 HOH 19 202 20 HOH HOH A . C 3 HOH 20 203 22 HOH HOH A . C 3 HOH 21 204 23 HOH HOH A . C 3 HOH 22 205 24 HOH HOH A . C 3 HOH 23 206 25 HOH HOH A . C 3 HOH 24 207 26 HOH HOH A . C 3 HOH 25 208 27 HOH HOH A . C 3 HOH 26 209 28 HOH HOH A . C 3 HOH 27 210 30 HOH HOH A . C 3 HOH 28 211 31 HOH HOH A . C 3 HOH 29 212 33 HOH HOH A . C 3 HOH 30 213 34 HOH HOH A . C 3 HOH 31 214 35 HOH HOH A . C 3 HOH 32 215 36 HOH HOH A . C 3 HOH 33 216 38 HOH HOH A . C 3 HOH 34 217 39 HOH HOH A . C 3 HOH 35 218 40 HOH HOH A . C 3 HOH 36 219 42 HOH HOH A . C 3 HOH 37 220 44 HOH HOH A . C 3 HOH 38 221 45 HOH HOH A . C 3 HOH 39 222 47 HOH HOH A . C 3 HOH 40 223 48 HOH HOH A . C 3 HOH 41 224 49 HOH HOH A . C 3 HOH 42 225 50 HOH HOH A . C 3 HOH 43 226 53 HOH HOH A . C 3 HOH 44 227 54 HOH HOH A . C 3 HOH 45 228 55 HOH HOH A . C 3 HOH 46 229 56 HOH HOH A . C 3 HOH 47 230 57 HOH HOH A . C 3 HOH 48 231 59 HOH HOH A . C 3 HOH 49 232 60 HOH HOH A . C 3 HOH 50 233 61 HOH HOH A . C 3 HOH 51 234 62 HOH HOH A . C 3 HOH 52 235 63 HOH HOH A . C 3 HOH 53 236 64 HOH HOH A . C 3 HOH 54 237 65 HOH HOH A . C 3 HOH 55 238 66 HOH HOH A . C 3 HOH 56 239 67 HOH HOH A . C 3 HOH 57 240 68 HOH HOH A . C 3 HOH 58 241 69 HOH HOH A . C 3 HOH 59 242 70 HOH HOH A . C 3 HOH 60 243 71 HOH HOH A . C 3 HOH 61 244 72 HOH HOH A . C 3 HOH 62 245 73 HOH HOH A . C 3 HOH 63 246 74 HOH HOH A . C 3 HOH 64 247 75 HOH HOH A . C 3 HOH 65 248 76 HOH HOH A . C 3 HOH 66 249 77 HOH HOH A . C 3 HOH 67 250 78 HOH HOH A . C 3 HOH 68 251 80 HOH HOH A . C 3 HOH 69 252 81 HOH HOH A . C 3 HOH 70 253 82 HOH HOH A . C 3 HOH 71 254 83 HOH HOH A . C 3 HOH 72 255 84 HOH HOH A . C 3 HOH 73 256 85 HOH HOH A . C 3 HOH 74 257 86 HOH HOH A . C 3 HOH 75 258 87 HOH HOH A . C 3 HOH 76 259 88 HOH HOH A . C 3 HOH 77 260 89 HOH HOH A . C 3 HOH 78 261 90 HOH HOH A . C 3 HOH 79 262 91 HOH HOH A . C 3 HOH 80 263 92 HOH HOH A . C 3 HOH 81 264 93 HOH HOH A . C 3 HOH 82 265 94 HOH HOH A . C 3 HOH 83 266 95 HOH HOH A . C 3 HOH 84 267 96 HOH HOH A . C 3 HOH 85 268 97 HOH HOH A . C 3 HOH 86 269 98 HOH HOH A . C 3 HOH 87 270 102 HOH HOH A . C 3 HOH 88 271 105 HOH HOH A . C 3 HOH 89 272 106 HOH HOH A . C 3 HOH 90 273 107 HOH HOH A . C 3 HOH 91 274 108 HOH HOH A . C 3 HOH 92 275 110 HOH HOH A . C 3 HOH 93 276 111 HOH HOH A . C 3 HOH 94 277 112 HOH HOH A . D 3 HOH 1 17 17 HOH HOH B . D 3 HOH 2 21 21 HOH HOH B . D 3 HOH 3 29 29 HOH HOH B . D 3 HOH 4 32 32 HOH HOH B . D 3 HOH 5 37 37 HOH HOH B . D 3 HOH 6 41 41 HOH HOH B . D 3 HOH 7 43 43 HOH HOH B . D 3 HOH 8 46 46 HOH HOH B . D 3 HOH 9 51 51 HOH HOH B . D 3 HOH 10 52 52 HOH HOH B . D 3 HOH 11 58 58 HOH HOH B . D 3 HOH 12 79 79 HOH HOH B . D 3 HOH 13 99 99 HOH HOH B . D 3 HOH 14 100 100 HOH HOH B . D 3 HOH 15 101 101 HOH HOH B . D 3 HOH 16 103 103 HOH HOH B . D 3 HOH 17 104 104 HOH HOH B . D 3 HOH 18 109 109 HOH HOH B . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 3 A MSE 26 ? MET SELENOMETHIONINE 2 A MSE 75 A MSE 98 ? MET SELENOMETHIONINE 3 A MSE 145 A MSE 168 ? MET SELENOMETHIONINE 4 B MSE 32 B MSE 376 ? MET SELENOMETHIONINE 5 B MSE 50 B MSE 394 ? MET SELENOMETHIONINE # _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)' 1770 ? 1 MORE -6 ? 1 'SSA (A^2)' 12890 ? # _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 # 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 2005-02-08 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2021-10-20 # _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 ? _pdbx_audit_revision_details.details ? # 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' 3 4 'Structure model' 'Database references' 4 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' struct_conn 3 4 'Structure model' struct_ref_seq_dif # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 4 'Structure model' '_struct_ref_seq_dif.details' # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CA B LEU 374 ? ? CB B LEU 374 ? ? CG B LEU 374 ? ? 132.47 115.30 17.17 2.30 N 2 1 N B ASP 419 ? ? CA B ASP 419 ? ? C B ASP 419 ? ? 127.40 111.00 16.40 2.70 N # 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 MSE A 26 ? ? -116.06 -166.58 2 1 GLU A 40 ? ? -115.32 58.32 3 1 SER A 73 ? ? 80.83 -6.14 4 1 ARG A 116 ? ? -126.71 -93.82 5 1 CYS A 181 ? ? -144.54 27.59 6 1 ALA B 359 ? ? -42.69 158.51 7 1 GLN B 362 ? ? -37.35 -39.73 8 1 LEU B 374 ? ? -149.20 -82.98 9 1 GLN B 375 ? ? 43.51 77.55 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A MSE 26 ? CG ? A MSE 3 CG 2 1 Y 1 A MSE 26 ? SE ? A MSE 3 SE 3 1 Y 1 A MSE 26 ? CE ? A MSE 3 CE # 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 B GLY 345 ? B GLY 1 2 1 Y 1 B SER 346 ? B SER 2 3 1 Y 1 B SER 347 ? B SER 3 4 1 Y 1 B GLN 348 ? B GLN 4 5 1 Y 1 B THR 441 ? B THR 97 6 1 Y 1 B SER 442 ? B SER 98 # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #