data_2DWK # _entry.id 2DWK # _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 2DWK RCSB RCSB025931 WWPDB D_1000025931 # _pdbx_database_PDB_obs_spr.id SPRSDE _pdbx_database_PDB_obs_spr.date 2006-08-29 _pdbx_database_PDB_obs_spr.pdb_id 2DWK _pdbx_database_PDB_obs_spr.replace_pdb_id 1WUS _pdbx_database_PDB_obs_spr.details ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2CXF 'the same protein in C2 space group' unspecified PDB 2CXL 'the same protein in I422 space group' unspecified PDB 2DWG 'the same protein in P2(1)P2(1)P2(1) space group' unspecified TargetDB mmk001003772.1 . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2DWK _pdbx_database_status.recvd_initial_deposition_date 2006-08-15 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kukimoto-Niino, M.' 1 'Murayama, K.' 2 'Shirouzu, M.' 3 'Yokoyama, S.' 4 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 5 # _citation.id primary _citation.title 'Crystal Structure of the RUN Domain of the RAP2-interacting Protein x' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 281 _citation.page_first 31843 _citation.page_last 31853 _citation.year 2006 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16928684 _citation.pdbx_database_id_DOI 10.1074/jbc.M604960200 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Kukimoto-Niino, M.' 1 primary 'Takagi, T.' 2 primary 'Akasaka, R.' 3 primary 'Murayama, K.' 4 primary 'Uchikubo-Kamo, T.' 5 primary 'Terada, T.' 6 primary 'Inoue, M.' 7 primary 'Watanabe, S.' 8 primary 'Tanaka, A.' 9 primary 'Hayashizaki, Y.' 10 primary 'Kigawa, T.' 11 primary 'Shirouzu, M.' 12 primary 'Yokoyama, S.' 13 # _cell.entry_id 2DWK _cell.length_a 86.523 _cell.length_b 86.523 _cell.length_c 106.582 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 2DWK _symmetry.space_group_name_H-M 'P 64 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _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 'Protein RUFY3' 20254.117 1 ? ? 'RUN domain' ? 2 water nat water 18.015 68 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Rap2-interacting protein x, RIPx' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;GSSGSSG(MSE)ANER(MSE)NL(MSE)N(MSE)AKLSIKGLIESALNLGRTLDSDYAPLQQFFVV(MSE)EHCLKHGLK AKKTFLGQNKSFWGPLELVEKLVPEAAEITASVKDLPGLKTPVGRGRAWLRLAL(MSE)QKKLSEY(MSE)KALINKKEL LSEFYEVNAL(MSE)(MSE)EEEGAIIAGLLVGLNVIDANFC(MSE)KGEDLDSQVGVID ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGMANERMNLMNMAKLSIKGLIESALNLGRTLDSDYAPLQQFFVVMEHCLKHGLKAKKTFLGQNKSFWGPLELVE KLVPEAAEITASVKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINKKELLSEFYEVNALMMEEEGAIIAGLLVGLNV IDANFCMKGEDLDSQVGVID ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier mmk001003772.1 # 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 SER n 1 4 GLY n 1 5 SER n 1 6 SER n 1 7 GLY n 1 8 MSE n 1 9 ALA n 1 10 ASN n 1 11 GLU n 1 12 ARG n 1 13 MSE n 1 14 ASN n 1 15 LEU n 1 16 MSE n 1 17 ASN n 1 18 MSE n 1 19 ALA n 1 20 LYS n 1 21 LEU n 1 22 SER n 1 23 ILE n 1 24 LYS n 1 25 GLY n 1 26 LEU n 1 27 ILE n 1 28 GLU n 1 29 SER n 1 30 ALA n 1 31 LEU n 1 32 ASN n 1 33 LEU n 1 34 GLY n 1 35 ARG n 1 36 THR n 1 37 LEU n 1 38 ASP n 1 39 SER n 1 40 ASP n 1 41 TYR n 1 42 ALA n 1 43 PRO n 1 44 LEU n 1 45 GLN n 1 46 GLN n 1 47 PHE n 1 48 PHE n 1 49 VAL n 1 50 VAL n 1 51 MSE n 1 52 GLU n 1 53 HIS n 1 54 CYS n 1 55 LEU n 1 56 LYS n 1 57 HIS n 1 58 GLY n 1 59 LEU n 1 60 LYS n 1 61 ALA n 1 62 LYS n 1 63 LYS n 1 64 THR n 1 65 PHE n 1 66 LEU n 1 67 GLY n 1 68 GLN n 1 69 ASN n 1 70 LYS n 1 71 SER n 1 72 PHE n 1 73 TRP n 1 74 GLY n 1 75 PRO n 1 76 LEU n 1 77 GLU n 1 78 LEU n 1 79 VAL n 1 80 GLU n 1 81 LYS n 1 82 LEU n 1 83 VAL n 1 84 PRO n 1 85 GLU n 1 86 ALA n 1 87 ALA n 1 88 GLU n 1 89 ILE n 1 90 THR n 1 91 ALA n 1 92 SER n 1 93 VAL n 1 94 LYS n 1 95 ASP n 1 96 LEU n 1 97 PRO n 1 98 GLY n 1 99 LEU n 1 100 LYS n 1 101 THR n 1 102 PRO n 1 103 VAL n 1 104 GLY n 1 105 ARG n 1 106 GLY n 1 107 ARG n 1 108 ALA n 1 109 TRP n 1 110 LEU n 1 111 ARG n 1 112 LEU n 1 113 ALA n 1 114 LEU n 1 115 MSE n 1 116 GLN n 1 117 LYS n 1 118 LYS n 1 119 LEU n 1 120 SER n 1 121 GLU n 1 122 TYR n 1 123 MSE n 1 124 LYS n 1 125 ALA n 1 126 LEU n 1 127 ILE n 1 128 ASN n 1 129 LYS n 1 130 LYS n 1 131 GLU n 1 132 LEU n 1 133 LEU n 1 134 SER n 1 135 GLU n 1 136 PHE n 1 137 TYR n 1 138 GLU n 1 139 VAL n 1 140 ASN n 1 141 ALA n 1 142 LEU n 1 143 MSE n 1 144 MSE n 1 145 GLU n 1 146 GLU n 1 147 GLU n 1 148 GLY n 1 149 ALA n 1 150 ILE n 1 151 ILE n 1 152 ALA n 1 153 GLY n 1 154 LEU n 1 155 LEU n 1 156 VAL n 1 157 GLY n 1 158 LEU n 1 159 ASN n 1 160 VAL n 1 161 ILE n 1 162 ASP n 1 163 ALA n 1 164 ASN n 1 165 PHE n 1 166 CYS n 1 167 MSE n 1 168 LYS n 1 169 GLY n 1 170 GLU n 1 171 ASP n 1 172 LEU n 1 173 ASP n 1 174 SER n 1 175 GLN n 1 176 VAL n 1 177 GLY n 1 178 VAL n 1 179 ILE n 1 180 ASP n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _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 'house mouse' _entity_src_gen.gene_src_genus Mus _entity_src_gen.pdbx_gene_src_gene 'Rufy3, D5Bwg0860e, Ripx' _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 'Mus musculus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 10090 _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 'Cell free synthesis' _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 plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name PK011025-09 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description 'Cell free protein synthesis' # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code RUFY3_MOUSE _struct_ref.pdbx_db_accession Q9D394 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MANERMNLMNMAKLSIKGLIESALNLGRTLDSDYAPLQQFFVVMEHCLKHGLKAKKTFLGQNKSFWGPLELVEKLVPEAA EITASVKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINKKELLSEFYEVNALMMEEEGAIIAGLLVGLNVIDANFCM KGEDLDSQVGVID ; _struct_ref.pdbx_align_begin 65 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2DWK _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 8 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 180 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9D394 _struct_ref_seq.db_align_beg 65 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 237 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 83 _struct_ref_seq.pdbx_auth_seq_align_end 255 # 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 2DWK GLY A 1 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 76 1 1 2DWK SER A 2 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 77 2 1 2DWK SER A 3 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 78 3 1 2DWK GLY A 4 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 79 4 1 2DWK SER A 5 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 80 5 1 2DWK SER A 6 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 81 6 1 2DWK GLY A 7 ? UNP Q9D394 ? ? 'CLONING ARTIFACT' 82 7 1 2DWK MSE A 8 ? UNP Q9D394 MET 65 'MODIFIED RESIDUE' 83 8 1 2DWK MSE A 13 ? UNP Q9D394 MET 70 'MODIFIED RESIDUE' 88 9 1 2DWK MSE A 16 ? UNP Q9D394 MET 73 'MODIFIED RESIDUE' 91 10 1 2DWK MSE A 18 ? UNP Q9D394 MET 75 'MODIFIED RESIDUE' 93 11 1 2DWK MSE A 51 ? UNP Q9D394 MET 108 'MODIFIED RESIDUE' 126 12 1 2DWK MSE A 115 ? UNP Q9D394 MET 172 'MODIFIED RESIDUE' 190 13 1 2DWK MSE A 123 ? UNP Q9D394 MET 180 'MODIFIED RESIDUE' 198 14 1 2DWK MSE A 143 ? UNP Q9D394 MET 200 'MODIFIED RESIDUE' 218 15 1 2DWK MSE A 144 ? UNP Q9D394 MET 201 'MODIFIED RESIDUE' 219 16 1 2DWK MSE A 167 ? UNP Q9D394 MET 224 'MODIFIED RESIDUE' 242 17 # 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 2DWK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.84 _exptl_crystal.density_percent_sol 56.73 _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 300 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pdbx_details '0.05M SODIUM CHLORIDE, 1.4M AMMONIUM SULFATE, 0.1M TRIS, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K' _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 'IMAGE PLATE' _diffrn_detector.type RIGAKU _diffrn_detector.pdbx_collection_date 2004-11-27 _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 ? _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 0.9792 1.0 2 0.9795 1.0 3 0.9640 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SPRING-8 BEAMLINE BL26B1' _diffrn_source.pdbx_synchrotron_site SPring-8 _diffrn_source.pdbx_synchrotron_beamline BL26B1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.9792, 0.9795, 0.9640' # _reflns.entry_id 2DWK _reflns.observed_criterion_sigma_I -3 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50 _reflns.d_resolution_high 2.0 _reflns.number_obs 16483 _reflns.number_all ? _reflns.percent_possible_obs 99.6 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.109 _reflns.pdbx_netI_over_sigmaI 14.5 _reflns.B_iso_Wilson_estimate 24.5 _reflns.pdbx_redundancy 10.2 _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 2.00 _reflns_shell.d_res_low 2.07 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.497 _reflns_shell.meanI_over_sigI_obs 5.2 _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 2DWK _refine.ls_number_reflns_obs 16483 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 1897785.36 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 33.59 _refine.ls_d_res_high 2.00 _refine.ls_percent_reflns_obs 99.7 _refine.ls_R_factor_obs 0.205 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.205 _refine.ls_R_factor_R_free 0.231 _refine.ls_R_factor_R_free_error 0.006 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.1 _refine.ls_number_reflns_R_free 1657 _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 38.8 _refine.aniso_B[1][1] 2.22 _refine.aniso_B[2][2] 2.22 _refine.aniso_B[3][3] -4.43 _refine.aniso_B[1][2] 0.34 _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 0.366412 _refine.solvent_model_param_bsol 55.5477 _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 ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _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 2DWK _refine_analyze.Luzzati_coordinate_error_obs 0.25 _refine_analyze.Luzzati_sigma_a_obs 0.20 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.29 _refine_analyze.Luzzati_sigma_a_free 0.24 _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 1260 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 68 _refine_hist.number_atoms_total 1328 _refine_hist.d_res_high 2.00 _refine_hist.d_res_low 33.59 # 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 19.9 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 0.99 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.00 _refine_ls_shell.d_res_low 2.13 _refine_ls_shell.number_reflns_R_work 2416 _refine_ls_shell.R_factor_R_work 0.265 _refine_ls_shell.percent_reflns_obs 100.0 _refine_ls_shell.R_factor_R_free 0.293 _refine_ls_shell.R_factor_R_free_error 0.018 _refine_ls_shell.percent_reflns_R_free 9.4 _refine_ls_shell.number_reflns_R_free 251 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # 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 water_rep.param water.top 'X-RAY DIFFRACTION' # _struct.entry_id 2DWK _struct.title 'Crystal structure of the RUN domain of mouse Rap2 interacting protein x' _struct.pdbx_descriptor 'Protein RUFY3' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2DWK _struct_keywords.pdbx_keywords 'PROTEIN BINDING' _struct_keywords.text ;RUN domain, effector, Rap2, bundle, protein binding, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI ; # 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 ? # 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 MSE A 8 ? GLY A 34 ? MSE A 83 GLY A 109 1 ? 27 HELX_P HELX_P2 2 TYR A 41 ? HIS A 57 ? TYR A 116 HIS A 132 1 ? 17 HELX_P HELX_P3 3 PHE A 72 ? VAL A 83 ? PHE A 147 VAL A 158 1 ? 12 HELX_P HELX_P4 4 ALA A 86 ? ASP A 95 ? ALA A 161 ASP A 170 1 ? 10 HELX_P HELX_P5 5 THR A 101 ? LYS A 117 ? THR A 176 LYS A 192 1 ? 17 HELX_P HELX_P6 6 LYS A 118 ? ASN A 128 ? LYS A 193 ASN A 203 1 ? 11 HELX_P HELX_P7 7 LYS A 129 ? SER A 134 ? LYS A 204 SER A 209 1 ? 6 HELX_P HELX_P8 8 ALA A 141 ? MSE A 144 ? ALA A 216 MSE A 219 5 ? 4 HELX_P HELX_P9 9 GLU A 145 ? LEU A 155 ? GLU A 220 LEU A 230 1 ? 11 HELX_P HELX_P10 10 VAL A 156 ? ILE A 161 ? VAL A 231 ILE A 236 5 ? 6 HELX_P HELX_P11 11 LYS A 168 ? ASP A 173 ? LYS A 243 ASP A 248 1 ? 6 # _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 covale1 covale ? ? A MSE 8 C ? ? ? 1_555 A ALA 9 N ? ? A MSE 83 A ALA 84 1_555 ? ? ? ? ? ? ? 1.331 ? covale2 covale ? ? A ARG 12 C ? ? ? 1_555 A MSE 13 N ? ? A ARG 87 A MSE 88 1_555 ? ? ? ? ? ? ? 1.327 ? covale3 covale ? ? A MSE 13 C ? ? ? 1_555 A ASN 14 N ? ? A MSE 88 A ASN 89 1_555 ? ? ? ? ? ? ? 1.325 ? covale4 covale ? ? A LEU 15 C ? ? ? 1_555 A MSE 16 N ? ? A LEU 90 A MSE 91 1_555 ? ? ? ? ? ? ? 1.330 ? covale5 covale ? ? A MSE 16 C ? ? ? 1_555 A ASN 17 N ? ? A MSE 91 A ASN 92 1_555 ? ? ? ? ? ? ? 1.331 ? covale6 covale ? ? A ASN 17 C ? ? ? 1_555 A MSE 18 N ? ? A ASN 92 A MSE 93 1_555 ? ? ? ? ? ? ? 1.326 ? covale7 covale ? ? A MSE 18 C ? ? ? 1_555 A ALA 19 N ? ? A MSE 93 A ALA 94 1_555 ? ? ? ? ? ? ? 1.332 ? covale8 covale ? ? A VAL 50 C ? ? ? 1_555 A MSE 51 N ? ? A VAL 125 A MSE 126 1_555 ? ? ? ? ? ? ? 1.326 ? covale9 covale ? ? A MSE 51 C ? ? ? 1_555 A GLU 52 N ? ? A MSE 126 A GLU 127 1_555 ? ? ? ? ? ? ? 1.327 ? covale10 covale ? ? A LEU 114 C ? ? ? 1_555 A MSE 115 N ? ? A LEU 189 A MSE 190 1_555 ? ? ? ? ? ? ? 1.333 ? covale11 covale ? ? A MSE 115 C ? ? ? 1_555 A GLN 116 N ? ? A MSE 190 A GLN 191 1_555 ? ? ? ? ? ? ? 1.330 ? covale12 covale ? ? A TYR 122 C ? ? ? 1_555 A MSE 123 N ? ? A TYR 197 A MSE 198 1_555 ? ? ? ? ? ? ? 1.328 ? covale13 covale ? ? A MSE 123 C ? ? ? 1_555 A LYS 124 N ? ? A MSE 198 A LYS 199 1_555 ? ? ? ? ? ? ? 1.322 ? covale14 covale ? ? A LEU 142 C ? ? ? 1_555 A MSE 143 N ? ? A LEU 217 A MSE 218 1_555 ? ? ? ? ? ? ? 1.332 ? covale15 covale ? ? A MSE 143 C ? ? ? 1_555 A MSE 144 N ? ? A MSE 218 A MSE 219 1_555 ? ? ? ? ? ? ? 1.328 ? covale16 covale ? ? A MSE 144 C ? ? ? 1_555 A GLU 145 N ? ? A MSE 219 A GLU 220 1_555 ? ? ? ? ? ? ? 1.330 ? covale17 covale ? ? A CYS 166 C ? ? ? 1_555 A MSE 167 N ? ? A CYS 241 A MSE 242 1_555 ? ? ? ? ? ? ? 1.329 ? covale18 covale ? ? A MSE 167 C ? ? ? 1_555 A LYS 168 N ? ? A MSE 242 A LYS 243 1_555 ? ? ? ? ? ? ? 1.330 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 2DWK _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 2DWK _atom_sites.fract_transf_matrix[1][1] 0.011558 _atom_sites.fract_transf_matrix[1][2] 0.006673 _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] 0.013346 _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] 0.009382 _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 76 ? ? ? A . n A 1 2 SER 2 77 ? ? ? A . n A 1 3 SER 3 78 ? ? ? A . n A 1 4 GLY 4 79 ? ? ? A . n A 1 5 SER 5 80 ? ? ? A . n A 1 6 SER 6 81 ? ? ? A . n A 1 7 GLY 7 82 ? ? ? A . n A 1 8 MSE 8 83 83 MSE MSE A . n A 1 9 ALA 9 84 84 ALA ALA A . n A 1 10 ASN 10 85 85 ASN ASN A . n A 1 11 GLU 11 86 86 GLU GLU A . n A 1 12 ARG 12 87 87 ARG ARG A . n A 1 13 MSE 13 88 88 MSE MSE A . n A 1 14 ASN 14 89 89 ASN ASN A . n A 1 15 LEU 15 90 90 LEU LEU A . n A 1 16 MSE 16 91 91 MSE MSE A . n A 1 17 ASN 17 92 92 ASN ASN A . n A 1 18 MSE 18 93 93 MSE MSE A . n A 1 19 ALA 19 94 94 ALA ALA A . n A 1 20 LYS 20 95 95 LYS LYS A . n A 1 21 LEU 21 96 96 LEU LEU A . n A 1 22 SER 22 97 97 SER SER A . n A 1 23 ILE 23 98 98 ILE ILE A . n A 1 24 LYS 24 99 99 LYS LYS A . n A 1 25 GLY 25 100 100 GLY GLY A . n A 1 26 LEU 26 101 101 LEU LEU A . n A 1 27 ILE 27 102 102 ILE ILE A . n A 1 28 GLU 28 103 103 GLU GLU A . n A 1 29 SER 29 104 104 SER SER A . n A 1 30 ALA 30 105 105 ALA ALA A . n A 1 31 LEU 31 106 106 LEU LEU A . n A 1 32 ASN 32 107 107 ASN ASN A . n A 1 33 LEU 33 108 108 LEU LEU A . n A 1 34 GLY 34 109 109 GLY GLY A . n A 1 35 ARG 35 110 110 ARG ARG A . n A 1 36 THR 36 111 111 THR THR A . n A 1 37 LEU 37 112 112 LEU LEU A . n A 1 38 ASP 38 113 113 ASP ASP A . n A 1 39 SER 39 114 114 SER SER A . n A 1 40 ASP 40 115 115 ASP ASP A . n A 1 41 TYR 41 116 116 TYR TYR A . n A 1 42 ALA 42 117 117 ALA ALA A . n A 1 43 PRO 43 118 118 PRO PRO A . n A 1 44 LEU 44 119 119 LEU LEU A . n A 1 45 GLN 45 120 120 GLN GLN A . n A 1 46 GLN 46 121 121 GLN GLN A . n A 1 47 PHE 47 122 122 PHE PHE A . n A 1 48 PHE 48 123 123 PHE PHE A . n A 1 49 VAL 49 124 124 VAL VAL A . n A 1 50 VAL 50 125 125 VAL VAL A . n A 1 51 MSE 51 126 126 MSE MSE A . n A 1 52 GLU 52 127 127 GLU GLU A . n A 1 53 HIS 53 128 128 HIS HIS A . n A 1 54 CYS 54 129 129 CYS CYS A . n A 1 55 LEU 55 130 130 LEU LEU A . n A 1 56 LYS 56 131 131 LYS LYS A . n A 1 57 HIS 57 132 132 HIS HIS A . n A 1 58 GLY 58 133 133 GLY GLY A . n A 1 59 LEU 59 134 134 LEU LEU A . n A 1 60 LYS 60 135 135 LYS LYS A . n A 1 61 ALA 61 136 136 ALA ALA A . n A 1 62 LYS 62 137 ? ? ? A . n A 1 63 LYS 63 138 ? ? ? A . n A 1 64 THR 64 139 ? ? ? A . n A 1 65 PHE 65 140 ? ? ? A . n A 1 66 LEU 66 141 ? ? ? A . n A 1 67 GLY 67 142 ? ? ? A . n A 1 68 GLN 68 143 ? ? ? A . n A 1 69 ASN 69 144 144 ASN ASN A . n A 1 70 LYS 70 145 145 LYS LYS A . n A 1 71 SER 71 146 146 SER SER A . n A 1 72 PHE 72 147 147 PHE PHE A . n A 1 73 TRP 73 148 148 TRP TRP A . n A 1 74 GLY 74 149 149 GLY GLY A . n A 1 75 PRO 75 150 150 PRO PRO A . n A 1 76 LEU 76 151 151 LEU LEU A . n A 1 77 GLU 77 152 152 GLU GLU A . n A 1 78 LEU 78 153 153 LEU LEU A . n A 1 79 VAL 79 154 154 VAL VAL A . n A 1 80 GLU 80 155 155 GLU GLU A . n A 1 81 LYS 81 156 156 LYS LYS A . n A 1 82 LEU 82 157 157 LEU LEU A . n A 1 83 VAL 83 158 158 VAL VAL A . n A 1 84 PRO 84 159 159 PRO PRO A . n A 1 85 GLU 85 160 160 GLU GLU A . n A 1 86 ALA 86 161 161 ALA ALA A . n A 1 87 ALA 87 162 162 ALA ALA A . n A 1 88 GLU 88 163 163 GLU GLU A . n A 1 89 ILE 89 164 164 ILE ILE A . n A 1 90 THR 90 165 165 THR THR A . n A 1 91 ALA 91 166 166 ALA ALA A . n A 1 92 SER 92 167 167 SER SER A . n A 1 93 VAL 93 168 168 VAL VAL A . n A 1 94 LYS 94 169 169 LYS LYS A . n A 1 95 ASP 95 170 170 ASP ASP A . n A 1 96 LEU 96 171 171 LEU LEU A . n A 1 97 PRO 97 172 172 PRO PRO A . n A 1 98 GLY 98 173 173 GLY GLY A . n A 1 99 LEU 99 174 174 LEU LEU A . n A 1 100 LYS 100 175 175 LYS LYS A . n A 1 101 THR 101 176 176 THR THR A . n A 1 102 PRO 102 177 177 PRO PRO A . n A 1 103 VAL 103 178 178 VAL VAL A . n A 1 104 GLY 104 179 179 GLY GLY A . n A 1 105 ARG 105 180 180 ARG ARG A . n A 1 106 GLY 106 181 181 GLY GLY A . n A 1 107 ARG 107 182 182 ARG ARG A . n A 1 108 ALA 108 183 183 ALA ALA A . n A 1 109 TRP 109 184 184 TRP TRP A . n A 1 110 LEU 110 185 185 LEU LEU A . n A 1 111 ARG 111 186 186 ARG ARG A . n A 1 112 LEU 112 187 187 LEU LEU A . n A 1 113 ALA 113 188 188 ALA ALA A . n A 1 114 LEU 114 189 189 LEU LEU A . n A 1 115 MSE 115 190 190 MSE MSE A . n A 1 116 GLN 116 191 191 GLN GLN A . n A 1 117 LYS 117 192 192 LYS LYS A . n A 1 118 LYS 118 193 193 LYS LYS A . n A 1 119 LEU 119 194 194 LEU LEU A . n A 1 120 SER 120 195 195 SER SER A . n A 1 121 GLU 121 196 196 GLU GLU A . n A 1 122 TYR 122 197 197 TYR TYR A . n A 1 123 MSE 123 198 198 MSE MSE A . n A 1 124 LYS 124 199 199 LYS LYS A . n A 1 125 ALA 125 200 200 ALA ALA A . n A 1 126 LEU 126 201 201 LEU LEU A . n A 1 127 ILE 127 202 202 ILE ILE A . n A 1 128 ASN 128 203 203 ASN ASN A . n A 1 129 LYS 129 204 204 LYS LYS A . n A 1 130 LYS 130 205 205 LYS LYS A . n A 1 131 GLU 131 206 206 GLU GLU A . n A 1 132 LEU 132 207 207 LEU LEU A . n A 1 133 LEU 133 208 208 LEU LEU A . n A 1 134 SER 134 209 209 SER SER A . n A 1 135 GLU 135 210 210 GLU GLU A . n A 1 136 PHE 136 211 211 PHE PHE A . n A 1 137 TYR 137 212 212 TYR TYR A . n A 1 138 GLU 138 213 213 GLU GLU A . n A 1 139 VAL 139 214 214 VAL VAL A . n A 1 140 ASN 140 215 215 ASN ASN A . n A 1 141 ALA 141 216 216 ALA ALA A . n A 1 142 LEU 142 217 217 LEU LEU A . n A 1 143 MSE 143 218 218 MSE MSE A . n A 1 144 MSE 144 219 219 MSE MSE A . n A 1 145 GLU 145 220 220 GLU GLU A . n A 1 146 GLU 146 221 221 GLU GLU A . n A 1 147 GLU 147 222 222 GLU GLU A . n A 1 148 GLY 148 223 223 GLY GLY A . n A 1 149 ALA 149 224 224 ALA ALA A . n A 1 150 ILE 150 225 225 ILE ILE A . n A 1 151 ILE 151 226 226 ILE ILE A . n A 1 152 ALA 152 227 227 ALA ALA A . n A 1 153 GLY 153 228 228 GLY GLY A . n A 1 154 LEU 154 229 229 LEU LEU A . n A 1 155 LEU 155 230 230 LEU LEU A . n A 1 156 VAL 156 231 231 VAL VAL A . n A 1 157 GLY 157 232 232 GLY GLY A . n A 1 158 LEU 158 233 233 LEU LEU A . n A 1 159 ASN 159 234 234 ASN ASN A . n A 1 160 VAL 160 235 235 VAL VAL A . n A 1 161 ILE 161 236 236 ILE ILE A . n A 1 162 ASP 162 237 237 ASP ASP A . n A 1 163 ALA 163 238 238 ALA ALA A . n A 1 164 ASN 164 239 239 ASN ASN A . n A 1 165 PHE 165 240 240 PHE PHE A . n A 1 166 CYS 166 241 241 CYS CYS A . n A 1 167 MSE 167 242 242 MSE MSE A . n A 1 168 LYS 168 243 243 LYS LYS A . n A 1 169 GLY 169 244 244 GLY GLY A . n A 1 170 GLU 170 245 245 GLU GLU A . n A 1 171 ASP 171 246 246 ASP ASP A . n A 1 172 LEU 172 247 247 LEU LEU A . n A 1 173 ASP 173 248 248 ASP ASP A . n A 1 174 SER 174 249 249 SER SER A . n A 1 175 GLN 175 250 250 GLN GLN A . n A 1 176 VAL 176 251 251 VAL VAL A . n A 1 177 GLY 177 252 ? ? ? A . n A 1 178 VAL 178 253 ? ? ? A . n A 1 179 ILE 179 254 ? ? ? A . n A 1 180 ASP 180 255 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'NPPSFA, National Project on Protein Structural and Functional Analyses' _pdbx_SG_project.full_name_of_center 'RIKEN Structural Genomics/Proteomics Initiative' _pdbx_SG_project.initial_of_center RSGI # 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 B 2 HOH 1 1 1 HOH TIP A . B 2 HOH 2 2 2 HOH TIP A . B 2 HOH 3 3 3 HOH TIP A . B 2 HOH 4 4 4 HOH TIP A . B 2 HOH 5 5 5 HOH TIP A . B 2 HOH 6 6 6 HOH TIP A . B 2 HOH 7 7 7 HOH TIP A . B 2 HOH 8 8 8 HOH TIP A . B 2 HOH 9 9 9 HOH TIP A . B 2 HOH 10 10 10 HOH TIP A . B 2 HOH 11 11 11 HOH TIP A . B 2 HOH 12 12 12 HOH TIP A . B 2 HOH 13 13 13 HOH TIP A . B 2 HOH 14 14 14 HOH TIP A . B 2 HOH 15 15 15 HOH TIP A . B 2 HOH 16 16 16 HOH TIP A . B 2 HOH 17 17 17 HOH TIP A . B 2 HOH 18 18 18 HOH TIP A . B 2 HOH 19 19 19 HOH TIP A . B 2 HOH 20 20 20 HOH TIP A . B 2 HOH 21 21 21 HOH TIP A . B 2 HOH 22 22 22 HOH TIP A . B 2 HOH 23 23 23 HOH TIP A . B 2 HOH 24 24 24 HOH TIP A . B 2 HOH 25 25 25 HOH TIP A . B 2 HOH 26 26 26 HOH TIP A . B 2 HOH 27 27 27 HOH TIP A . B 2 HOH 28 28 28 HOH TIP A . B 2 HOH 29 29 29 HOH TIP A . B 2 HOH 30 30 30 HOH TIP A . B 2 HOH 31 31 31 HOH TIP A . B 2 HOH 32 32 32 HOH TIP A . B 2 HOH 33 33 33 HOH TIP A . B 2 HOH 34 34 34 HOH TIP A . B 2 HOH 35 35 35 HOH TIP A . B 2 HOH 36 36 36 HOH TIP A . B 2 HOH 37 37 37 HOH TIP A . B 2 HOH 38 38 38 HOH TIP A . B 2 HOH 39 39 39 HOH TIP A . B 2 HOH 40 40 40 HOH TIP A . B 2 HOH 41 41 41 HOH TIP A . B 2 HOH 42 42 42 HOH TIP A . B 2 HOH 43 43 43 HOH TIP A . B 2 HOH 44 44 44 HOH TIP A . B 2 HOH 45 45 45 HOH TIP A . B 2 HOH 46 46 46 HOH TIP A . B 2 HOH 47 47 47 HOH TIP A . B 2 HOH 48 48 48 HOH TIP A . B 2 HOH 49 49 49 HOH TIP A . B 2 HOH 50 50 50 HOH TIP A . B 2 HOH 51 51 51 HOH TIP A . B 2 HOH 52 52 52 HOH TIP A . B 2 HOH 53 53 53 HOH TIP A . B 2 HOH 54 54 54 HOH TIP A . B 2 HOH 55 55 55 HOH TIP A . B 2 HOH 56 56 56 HOH TIP A . B 2 HOH 57 57 57 HOH TIP A . B 2 HOH 58 58 58 HOH TIP A . B 2 HOH 59 59 59 HOH TIP A . B 2 HOH 60 60 60 HOH TIP A . B 2 HOH 61 61 61 HOH TIP A . B 2 HOH 62 62 62 HOH TIP A . B 2 HOH 63 63 63 HOH TIP A . B 2 HOH 64 64 64 HOH TIP A . B 2 HOH 65 65 65 HOH TIP A . B 2 HOH 66 66 66 HOH TIP A . B 2 HOH 67 67 67 HOH TIP A . B 2 HOH 68 68 68 HOH TIP A . # 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 8 A MSE 83 ? MET SELENOMETHIONINE 2 A MSE 13 A MSE 88 ? MET SELENOMETHIONINE 3 A MSE 16 A MSE 91 ? MET SELENOMETHIONINE 4 A MSE 18 A MSE 93 ? MET SELENOMETHIONINE 5 A MSE 51 A MSE 126 ? MET SELENOMETHIONINE 6 A MSE 115 A MSE 190 ? MET SELENOMETHIONINE 7 A MSE 123 A MSE 198 ? MET SELENOMETHIONINE 8 A MSE 143 A MSE 218 ? MET SELENOMETHIONINE 9 A MSE 144 A MSE 219 ? MET SELENOMETHIONINE 10 A MSE 167 A MSE 242 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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 64 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id B _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 2006-08-29 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 HKL-2000 'data collection' . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 SOLVE phasing . ? 5 # 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 SER A 146 ? ? 47.52 -138.96 2 1 PRO A 172 ? ? -54.57 106.41 3 1 CYS A 241 ? ? -121.24 -153.97 # 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 GLY 76 ? A GLY 1 2 1 Y 1 A SER 77 ? A SER 2 3 1 Y 1 A SER 78 ? A SER 3 4 1 Y 1 A GLY 79 ? A GLY 4 5 1 Y 1 A SER 80 ? A SER 5 6 1 Y 1 A SER 81 ? A SER 6 7 1 Y 1 A GLY 82 ? A GLY 7 8 1 Y 1 A LYS 137 ? A LYS 62 9 1 Y 1 A LYS 138 ? A LYS 63 10 1 Y 1 A THR 139 ? A THR 64 11 1 Y 1 A PHE 140 ? A PHE 65 12 1 Y 1 A LEU 141 ? A LEU 66 13 1 Y 1 A GLY 142 ? A GLY 67 14 1 Y 1 A GLN 143 ? A GLN 68 15 1 Y 1 A GLY 252 ? A GLY 177 16 1 Y 1 A VAL 253 ? A VAL 178 17 1 Y 1 A ILE 254 ? A ILE 179 18 1 Y 1 A ASP 255 ? A ASP 180 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #