data_3K93 # _entry.id 3K93 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.365 _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 3K93 pdb_00003k93 10.2210/pdb3k93/pdb RCSB RCSB055700 ? ? WWPDB D_1000055700 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 392534 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3K93 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2009-10-15 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal structure of phage related exonuclease (YP_719632.1) from HAEMOPHILUS SOMNUS 129PT at 2.15 A resolution' _citation.journal_abbrev 'To be published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # _citation_author.citation_id primary _citation_author.name 'Joint Center for Structural Genomics (JCSG)' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _cell.entry_id 3K93 _cell.length_a 113.369 _cell.length_b 113.369 _cell.length_c 42.284 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 6 _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 3K93 _symmetry.Int_Tables_number 150 _symmetry.space_group_name_H-M 'P 3 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _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 'phage related exonuclease' 25887.744 1 ? ? ? ? 2 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 3 non-polymer syn 'CHLORIDE ION' 35.453 2 ? ? ? ? 4 non-polymer syn GLYCEROL 92.094 1 ? ? ? ? 5 non-polymer syn 'DI(HYDROXYETHYL)ETHER' 106.120 2 ? ? ? ? 6 water nat water 18.015 122 ? ? ? ? # _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 ;G(MSE)NNLYHLKVRCSSLHKIIGEPKSKADKEAGKLTDTAKSAVRE(MSE)AKFDLFGYNAFEGNKYTQKGNELEEQAI KLSGVTRGLALKKNTERRENEFITGECDIYVPSRKLIIDTKCSWDIGSHPFFTDEAQEKAKKAGYDIQ(MSE)QGY (MSE)WLWDCDQAQIDFVLFPTPLNLISAYDSDFKLIDLVEQIPQIRRITTVIIQRDNELIDKIKERVSAAQKYYDQLIS E(MSE)S ; _entity_poly.pdbx_seq_one_letter_code_can ;GMNNLYHLKVRCSSLHKIIGEPKSKADKEAGKLTDTAKSAVREMAKFDLFGYNAFEGNKYTQKGNELEEQAIKLSGVTRG LALKKNTERRENEFITGECDIYVPSRKLIIDTKCSWDIGSHPFFTDEAQEKAKKAGYDIQMQGYMWLWDCDQAQIDFVLF PTPLNLISAYDSDFKLIDLVEQIPQIRRITTVIIQRDNELIDKIKERVSAAQKYYDQLISEMS ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 392534 # 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 MSE n 1 3 ASN n 1 4 ASN n 1 5 LEU n 1 6 TYR n 1 7 HIS n 1 8 LEU n 1 9 LYS n 1 10 VAL n 1 11 ARG n 1 12 CYS n 1 13 SER n 1 14 SER n 1 15 LEU n 1 16 HIS n 1 17 LYS n 1 18 ILE n 1 19 ILE n 1 20 GLY n 1 21 GLU n 1 22 PRO n 1 23 LYS n 1 24 SER n 1 25 LYS n 1 26 ALA n 1 27 ASP n 1 28 LYS n 1 29 GLU n 1 30 ALA n 1 31 GLY n 1 32 LYS n 1 33 LEU n 1 34 THR n 1 35 ASP n 1 36 THR n 1 37 ALA n 1 38 LYS n 1 39 SER n 1 40 ALA n 1 41 VAL n 1 42 ARG n 1 43 GLU n 1 44 MSE n 1 45 ALA n 1 46 LYS n 1 47 PHE n 1 48 ASP n 1 49 LEU n 1 50 PHE n 1 51 GLY n 1 52 TYR n 1 53 ASN n 1 54 ALA n 1 55 PHE n 1 56 GLU n 1 57 GLY n 1 58 ASN n 1 59 LYS n 1 60 TYR n 1 61 THR n 1 62 GLN n 1 63 LYS n 1 64 GLY n 1 65 ASN n 1 66 GLU n 1 67 LEU n 1 68 GLU n 1 69 GLU n 1 70 GLN n 1 71 ALA n 1 72 ILE n 1 73 LYS n 1 74 LEU n 1 75 SER n 1 76 GLY n 1 77 VAL n 1 78 THR n 1 79 ARG n 1 80 GLY n 1 81 LEU n 1 82 ALA n 1 83 LEU n 1 84 LYS n 1 85 LYS n 1 86 ASN n 1 87 THR n 1 88 GLU n 1 89 ARG n 1 90 ARG n 1 91 GLU n 1 92 ASN n 1 93 GLU n 1 94 PHE n 1 95 ILE n 1 96 THR n 1 97 GLY n 1 98 GLU n 1 99 CYS n 1 100 ASP n 1 101 ILE n 1 102 TYR n 1 103 VAL n 1 104 PRO n 1 105 SER n 1 106 ARG n 1 107 LYS n 1 108 LEU n 1 109 ILE n 1 110 ILE n 1 111 ASP n 1 112 THR n 1 113 LYS n 1 114 CYS n 1 115 SER n 1 116 TRP n 1 117 ASP n 1 118 ILE n 1 119 GLY n 1 120 SER n 1 121 HIS n 1 122 PRO n 1 123 PHE n 1 124 PHE n 1 125 THR n 1 126 ASP n 1 127 GLU n 1 128 ALA n 1 129 GLN n 1 130 GLU n 1 131 LYS n 1 132 ALA n 1 133 LYS n 1 134 LYS n 1 135 ALA n 1 136 GLY n 1 137 TYR n 1 138 ASP n 1 139 ILE n 1 140 GLN n 1 141 MSE n 1 142 GLN n 1 143 GLY n 1 144 TYR n 1 145 MSE n 1 146 TRP n 1 147 LEU n 1 148 TRP n 1 149 ASP n 1 150 CYS n 1 151 ASP n 1 152 GLN n 1 153 ALA n 1 154 GLN n 1 155 ILE n 1 156 ASP n 1 157 PHE n 1 158 VAL n 1 159 LEU n 1 160 PHE n 1 161 PRO n 1 162 THR n 1 163 PRO n 1 164 LEU n 1 165 ASN n 1 166 LEU n 1 167 ILE n 1 168 SER n 1 169 ALA n 1 170 TYR n 1 171 ASP n 1 172 SER n 1 173 ASP n 1 174 PHE n 1 175 LYS n 1 176 LEU n 1 177 ILE n 1 178 ASP n 1 179 LEU n 1 180 VAL n 1 181 GLU n 1 182 GLN n 1 183 ILE n 1 184 PRO n 1 185 GLN n 1 186 ILE n 1 187 ARG n 1 188 ARG n 1 189 ILE n 1 190 THR n 1 191 THR n 1 192 VAL n 1 193 ILE n 1 194 ILE n 1 195 GLN n 1 196 ARG n 1 197 ASP n 1 198 ASN n 1 199 GLU n 1 200 LEU n 1 201 ILE n 1 202 ASP n 1 203 LYS n 1 204 ILE n 1 205 LYS n 1 206 GLU n 1 207 ARG n 1 208 VAL n 1 209 SER n 1 210 ALA n 1 211 ALA n 1 212 GLN n 1 213 LYS n 1 214 TYR n 1 215 TYR n 1 216 ASP n 1 217 GLN n 1 218 LEU n 1 219 ILE n 1 220 SER n 1 221 GLU n 1 222 MSE n 1 223 SER 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 'Histophilus somni (strain 129Pt)' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene HS_1420 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 129Pt _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 'Haemophilus somnus 129PT' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 205914 _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 'Escherichia Coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _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 HK100 _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 SpeedET _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q0I4G3_HAES1 _struct_ref.pdbx_db_accession Q0I4G3 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MNNLYHLKVRCSSLHKIIGEPKSKADKEAGKLTDTAKSAVREMAKFDLFGYNAFEGNKYTQKGNELEEQAIKLSGVTRGL ALKKNTERRENEFITGECDIYVPSRKLIIDTKCSWDIGSHPFFTDEAQEKAKKAGYDIQMQGYMWLWDCDQAQIDFVLFP TPLNLISAYDSDFKLIDLVEQIPQIRRITTVIIQRDNELIDKIKERVSAAQKYYDQLISEMS ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3K93 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 223 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q0I4G3 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 222 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 222 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3K93 _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code Q0I4G3 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 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 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 PEG non-polymer . 'DI(HYDROXYETHYL)ETHER' ? 'C4 H10 O3' 106.120 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.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 3K93 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 3.03 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 59.41 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details ;10.0000% Glycerol, 1.0000M NaCl, 30.0000% PEG-600, 0.1M Cacodylate pH 6.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K ; _exptl_crystal_grow.temp_details ? _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 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'Flat mirror (vertical focusing)' _diffrn_detector.pdbx_collection_date 2009-07-08 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Single crystal Si(111) bent monochromator (horizontal focusing)' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.91837 1.0 2 0.97947 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL11-1 _diffrn_source.type 'SSRL BEAMLINE BL11-1' _diffrn_source.pdbx_wavelength_list 0.91837,0.97947 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 3K93 _reflns.d_resolution_high 2.15 _reflns.d_resolution_low 28.341 _reflns.number_obs 17252 _reflns.pdbx_Rmerge_I_obs 0.129 _reflns.pdbx_netI_over_sigmaI 12.800 _reflns.pdbx_Rsym_value 0.129 _reflns.pdbx_redundancy 7.400 _reflns.percent_possible_obs 100.000 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.B_iso_Wilson_estimate 32.941 _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_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.15 2.21 ? 9647 ? 0.836 2.1 0.836 ? 7.50 ? 1285 100.00 1 1 2.21 2.27 ? 9033 ? 0.682 1.1 0.682 ? 7.50 ? 1205 100.00 2 1 2.27 2.33 ? 9065 ? 0.575 1.3 0.575 ? 7.50 ? 1204 100.00 3 1 2.33 2.40 ? 8654 ? 0.495 1.5 0.495 ? 7.50 ? 1156 100.00 4 1 2.40 2.48 ? 8612 ? 0.399 1.9 0.399 ? 7.50 ? 1145 100.00 5 1 2.48 2.57 ? 8152 ? 0.333 2.3 0.333 ? 7.50 ? 1083 100.00 6 1 2.57 2.67 ? 7814 ? 0.313 2.4 0.313 ? 7.50 ? 1048 100.00 7 1 2.67 2.78 ? 7670 ? 0.244 3.1 0.244 ? 7.60 ? 1015 100.00 8 1 2.78 2.90 ? 7268 ? 0.204 3.7 0.204 ? 7.50 ? 975 100.00 9 1 2.90 3.04 ? 7057 ? 0.157 4.7 0.157 ? 7.50 ? 941 100.00 10 1 3.04 3.21 ? 6641 ? 0.128 5.6 0.128 ? 7.50 ? 884 100.00 11 1 3.21 3.40 ? 6303 ? 0.107 6.4 0.107 ? 7.50 ? 844 100.00 12 1 3.40 3.63 ? 5873 ? 0.092 7.2 0.092 ? 7.40 ? 794 100.00 13 1 3.63 3.93 ? 5526 ? 0.081 7.7 0.081 ? 7.40 ? 749 100.00 14 1 3.93 4.30 ? 5039 ? 0.071 9.2 0.071 ? 7.40 ? 683 100.00 15 1 4.30 4.81 ? 4631 ? 0.066 9.7 0.066 ? 7.40 ? 630 100.00 16 1 4.81 5.55 ? 4000 ? 0.070 9.2 0.070 ? 7.30 ? 546 100.00 17 1 5.55 6.80 ? 3404 ? 0.073 9.3 0.073 ? 7.20 ? 476 100.00 18 1 6.80 9.62 ? 2651 ? 0.061 9.8 0.061 ? 7.10 ? 375 100.00 19 1 9.62 28.34 ? 1365 ? 0.055 11.5 0.055 ? 6.40 ? 214 96.60 20 1 # _refine.entry_id 3K93 _refine.ls_d_res_high 2.150 _refine.ls_d_res_low 28.341 _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.990 _refine.ls_number_reflns_obs 17249 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. SODIUM (NA) AND CHLORIDE (CL) IONS, GLYCEROL (GOL), AND POLYETHYLENE GLYCOL (PEG) FROM THE CRYSTALLIZATION SOLUTION HAVE BEEN MODELED INTO THE SOLVENT STRUCTURE. 5. TLS GROUPS WERE ASSIGNED WITH THE AID OF THE TLSMD SERVER. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.174 _refine.ls_R_factor_R_work 0.172 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.212 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 874 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 18.489 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.130 _refine.aniso_B[2][2] -0.130 _refine.aniso_B[3][3] 0.200 _refine.aniso_B[1][2] -0.070 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.961 _refine.correlation_coeff_Fo_to_Fc_free 0.939 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R 0.180 _refine.pdbx_overall_ESU_R_Free 0.160 _refine.overall_SU_ML 0.107 _refine.overall_SU_B 9.253 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.400 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 75.03 _refine.B_iso_min 3.84 _refine.occupancy_max 1.00 _refine.occupancy_min 0.40 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _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 1775 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 23 _refine_hist.number_atoms_solvent 122 _refine_hist.number_atoms_total 1920 _refine_hist.d_res_high 2.150 _refine_hist.d_res_low 28.341 # loop_ _refine_ls_restr.type _refine_ls_restr.pdbx_refine_id _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 'X-RAY DIFFRACTION' 1858 0.018 0.022 ? ? r_bond_other_d 'X-RAY DIFFRACTION' 1279 0.002 0.020 ? ? r_angle_refined_deg 'X-RAY DIFFRACTION' 2508 1.459 1.962 ? ? r_angle_other_deg 'X-RAY DIFFRACTION' 3132 0.971 3.000 ? ? r_dihedral_angle_1_deg 'X-RAY DIFFRACTION' 232 5.373 5.000 ? ? r_dihedral_angle_2_deg 'X-RAY DIFFRACTION' 90 33.597 25.222 ? ? r_dihedral_angle_3_deg 'X-RAY DIFFRACTION' 338 14.765 15.000 ? ? r_dihedral_angle_4_deg 'X-RAY DIFFRACTION' 10 15.013 15.000 ? ? r_chiral_restr 'X-RAY DIFFRACTION' 275 0.102 0.200 ? ? r_gen_planes_refined 'X-RAY DIFFRACTION' 2058 0.005 0.020 ? ? r_gen_planes_other 'X-RAY DIFFRACTION' 364 0.001 0.020 ? ? r_mcbond_it 'X-RAY DIFFRACTION' 1124 0.753 1.500 ? ? r_mcbond_other 'X-RAY DIFFRACTION' 456 0.167 1.500 ? ? r_mcangle_it 'X-RAY DIFFRACTION' 1821 1.445 2.000 ? ? r_scbond_it 'X-RAY DIFFRACTION' 734 2.271 3.000 ? ? r_scangle_it 'X-RAY DIFFRACTION' 682 3.765 4.500 ? ? # _refine_ls_shell.d_res_high 2.150 _refine_ls_shell.d_res_low 2.205 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 100.000 _refine_ls_shell.number_reflns_R_work 1213 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.255 _refine_ls_shell.R_factor_R_free 0.303 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 63 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1276 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3K93 _struct.title 'Crystal structure of phage related exonuclease (YP_719632.1) from HAEMOPHILUS SOMNUS 129PT at 2.15 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;phage related exonuclease, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, HYDROLASE ; _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.entry_id 3K93 # 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 ? E N N 4 ? F N N 5 ? G N N 5 ? H N N 6 ? # _struct_biol.id 1 _struct_biol.details ;CRYSTAL PACKING AND ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY ANALYSIS SUPPORT THE ASSIGNMENT OF A TRIMER AS A SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. ; # 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 GLY A 1 ? TYR A 6 ? GLY A 0 TYR A 5 5 ? 6 HELX_P HELX_P2 2 SER A 14 ? GLY A 20 ? SER A 13 GLY A 19 1 ? 7 HELX_P HELX_P3 3 SER A 24 ? ALA A 30 ? SER A 23 ALA A 29 1 ? 7 HELX_P HELX_P4 4 THR A 34 ? GLY A 51 ? THR A 33 GLY A 50 1 ? 18 HELX_P HELX_P5 5 ASN A 58 ? LEU A 67 ? ASN A 57 LEU A 66 1 ? 10 HELX_P HELX_P6 6 LEU A 67 ? GLY A 80 ? LEU A 66 GLY A 79 1 ? 14 HELX_P HELX_P7 7 PRO A 104 ? ARG A 106 ? PRO A 103 ARG A 105 5 ? 3 HELX_P HELX_P8 8 PHE A 124 ? ALA A 135 ? PHE A 123 ALA A 134 1 ? 12 HELX_P HELX_P9 9 GLY A 136 ? ASP A 149 ? GLY A 135 ASP A 148 1 ? 14 HELX_P HELX_P10 10 PRO A 163 ? ILE A 167 ? PRO A 162 ILE A 166 5 ? 5 HELX_P HELX_P11 11 SER A 172 ? ILE A 177 ? SER A 171 ILE A 176 1 ? 6 HELX_P HELX_P12 12 ILE A 177 ? GLN A 182 ? ILE A 176 GLN A 181 1 ? 6 HELX_P HELX_P13 13 PRO A 184 ? ARG A 187 ? PRO A 183 ARG A 186 5 ? 4 HELX_P HELX_P14 14 ASP A 197 ? MSE A 222 ? ASP A 196 MSE A 221 1 ? 26 # _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 GLY 1 C ? ? ? 1_555 A MSE 2 N ? ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.358 ? ? covale2 covale both ? A MSE 2 C ? ? ? 1_555 A ASN 3 N ? ? A MSE 1 A ASN 2 1_555 ? ? ? ? ? ? ? 1.339 ? ? covale3 covale both ? A GLU 43 C ? ? ? 1_555 A MSE 44 N ? ? A GLU 42 A MSE 43 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale4 covale both ? A MSE 44 C ? ? ? 1_555 A ALA 45 N ? ? A MSE 43 A ALA 44 1_555 ? ? ? ? ? ? ? 1.342 ? ? covale5 covale both ? A GLN 140 C ? ? ? 1_555 A MSE 141 N ? ? A GLN 139 A MSE 140 1_555 ? ? ? ? ? ? ? 1.340 ? ? covale6 covale both ? A MSE 141 C ? ? ? 1_555 A GLN 142 N ? ? A MSE 140 A GLN 141 1_555 ? ? ? ? ? ? ? 1.347 ? ? covale7 covale both ? A TYR 144 C ? ? ? 1_555 A MSE 145 N ? ? A TYR 143 A MSE 144 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale8 covale both ? A MSE 145 C ? ? ? 1_555 A TRP 146 N ? ? A MSE 144 A TRP 145 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale9 covale both ? A GLU 221 C ? ? ? 1_555 A MSE 222 N ? ? A GLU 220 A MSE 221 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale10 covale both ? A MSE 222 C ? ? ? 1_555 A SER 223 N ? ? A MSE 221 A SER 222 1_555 ? ? ? ? ? ? ? 1.324 ? ? metalc1 metalc ? ? A ASP 100 OD2 ? ? ? 1_555 B NA . NA ? ? A ASP 99 A NA 223 1_555 ? ? ? ? ? ? ? 2.435 ? ? metalc2 metalc ? ? A ASP 111 OD1 ? ? ? 1_555 B NA . NA ? ? A ASP 110 A NA 223 1_555 ? ? ? ? ? ? ? 2.552 ? ? metalc3 metalc ? ? A THR 112 O ? ? ? 1_555 B NA . NA ? ? A THR 111 A NA 223 1_555 ? ? ? ? ? ? ? 2.407 ? ? metalc4 metalc ? ? B NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 223 A HOH 282 1_555 ? ? ? ? ? ? ? 2.632 ? ? metalc5 metalc ? ? B NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 223 A HOH 292 1_555 ? ? ? ? ? ? ? 2.323 ? ? metalc6 metalc ? ? B NA . NA ? ? ? 1_555 H HOH . O ? ? A NA 223 A HOH 339 1_555 ? ? ? ? ? ? ? 2.648 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? B ? 4 ? # 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 ? parallel A 2 3 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? parallel B 3 4 ? 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 10 ? ARG A 11 ? VAL A 9 ARG A 10 A 2 ILE A 95 ? GLY A 97 ? ILE A 94 GLY A 96 A 3 ARG A 90 ? GLU A 91 ? ARG A 89 GLU A 90 B 1 ILE A 101 ? VAL A 103 ? ILE A 100 VAL A 102 B 2 LEU A 108 ? CYS A 114 ? LEU A 107 CYS A 113 B 3 GLN A 152 ? VAL A 158 ? GLN A 151 VAL A 157 B 4 ILE A 189 ? GLN A 195 ? ILE A 188 GLN A 194 # 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 10 ? N VAL A 9 O THR A 96 ? O THR A 95 A 2 3 O GLY A 97 ? O GLY A 96 N ARG A 90 ? N ARG A 89 B 1 2 N VAL A 103 ? N VAL A 102 O LEU A 108 ? O LEU A 107 B 2 3 N ASP A 111 ? N ASP A 110 O ASP A 156 ? O ASP A 155 B 3 4 N ALA A 153 ? N ALA A 152 O ILE A 194 ? O ILE A 193 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A NA 223 ? 6 'BINDING SITE FOR RESIDUE NA A 223' AC2 Software A CL 224 ? 2 'BINDING SITE FOR RESIDUE CL A 224' AC3 Software A CL 225 ? 5 'BINDING SITE FOR RESIDUE CL A 225' AC4 Software A GOL 226 ? 1 'BINDING SITE FOR RESIDUE GOL A 226' AC5 Software A PEG 227 ? 5 'BINDING SITE FOR RESIDUE PEG A 227' AC6 Software A PEG 228 ? 10 'BINDING SITE FOR RESIDUE PEG A 228' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 ASP A 100 ? ASP A 99 . ? 1_555 ? 2 AC1 6 ASP A 111 ? ASP A 110 . ? 1_555 ? 3 AC1 6 THR A 112 ? THR A 111 . ? 1_555 ? 4 AC1 6 HOH H . ? HOH A 282 . ? 1_555 ? 5 AC1 6 HOH H . ? HOH A 292 . ? 1_555 ? 6 AC1 6 HOH H . ? HOH A 339 . ? 1_555 ? 7 AC2 2 ARG A 89 ? ARG A 88 . ? 1_555 ? 8 AC2 2 TYR A 144 ? TYR A 143 . ? 1_555 ? 9 AC3 5 SER A 115 ? SER A 114 . ? 1_555 ? 10 AC3 5 TRP A 116 ? TRP A 115 . ? 1_555 ? 11 AC3 5 SER A 120 ? SER A 119 . ? 1_555 ? 12 AC3 5 LYS A 131 ? LYS A 130 . ? 1_555 ? 13 AC3 5 GOL E . ? GOL A 226 . ? 1_555 ? 14 AC4 1 CL D . ? CL A 225 . ? 1_555 ? 15 AC5 5 MSE A 2 ? MSE A 1 . ? 4_556 ? 16 AC5 5 PHE A 47 ? PHE A 46 . ? 1_555 ? 17 AC5 5 ASP A 48 ? ASP A 47 . ? 1_555 ? 18 AC5 5 GLY A 51 ? GLY A 50 . ? 1_555 ? 19 AC5 5 GLN A 182 ? GLN A 181 . ? 2_665 ? 20 AC6 10 SER A 13 ? SER A 12 . ? 1_555 ? 21 AC6 10 HIS A 16 ? HIS A 15 . ? 1_555 ? 22 AC6 10 LYS A 113 ? LYS A 112 . ? 1_555 ? 23 AC6 10 ALA A 135 ? ALA A 134 . ? 1_555 ? 24 AC6 10 GLY A 136 ? GLY A 135 . ? 1_555 ? 25 AC6 10 TYR A 137 ? TYR A 136 . ? 1_555 ? 26 AC6 10 GLN A 140 ? GLN A 139 . ? 1_555 ? 27 AC6 10 HOH H . ? HOH A 241 . ? 1_555 ? 28 AC6 10 HOH H . ? HOH A 292 . ? 1_555 ? 29 AC6 10 HOH H . ? HOH A 325 . ? 1_555 ? # _atom_sites.entry_id 3K93 _atom_sites.fract_transf_matrix[1][1] 0.008821 _atom_sites.fract_transf_matrix[1][2] 0.005093 _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] 0.010185 _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] 0.023650 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C CL N NA 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 0 0 GLY GLY A . n A 1 2 MSE 2 1 1 MSE MSE A . n A 1 3 ASN 3 2 2 ASN ASN A . n A 1 4 ASN 4 3 3 ASN ASN A . n A 1 5 LEU 5 4 4 LEU LEU A . n A 1 6 TYR 6 5 5 TYR TYR A . n A 1 7 HIS 7 6 6 HIS HIS A . n A 1 8 LEU 8 7 7 LEU LEU A . n A 1 9 LYS 9 8 8 LYS LYS A . n A 1 10 VAL 10 9 9 VAL VAL A . n A 1 11 ARG 11 10 10 ARG ARG A . n A 1 12 CYS 12 11 11 CYS CYS A . n A 1 13 SER 13 12 12 SER SER A . n A 1 14 SER 14 13 13 SER SER A . n A 1 15 LEU 15 14 14 LEU LEU A . n A 1 16 HIS 16 15 15 HIS HIS A . n A 1 17 LYS 17 16 16 LYS LYS A . n A 1 18 ILE 18 17 17 ILE ILE A . n A 1 19 ILE 19 18 18 ILE ILE A . n A 1 20 GLY 20 19 19 GLY GLY A . n A 1 21 GLU 21 20 20 GLU GLU A . n A 1 22 PRO 22 21 21 PRO PRO A . n A 1 23 LYS 23 22 22 LYS LYS A . n A 1 24 SER 24 23 23 SER SER A . n A 1 25 LYS 25 24 24 LYS LYS A . n A 1 26 ALA 26 25 25 ALA ALA A . n A 1 27 ASP 27 26 26 ASP ASP A . n A 1 28 LYS 28 27 27 LYS LYS A . n A 1 29 GLU 29 28 28 GLU GLU A . n A 1 30 ALA 30 29 29 ALA ALA A . n A 1 31 GLY 31 30 30 GLY GLY A . n A 1 32 LYS 32 31 31 LYS LYS A . n A 1 33 LEU 33 32 32 LEU LEU A . n A 1 34 THR 34 33 33 THR THR A . n A 1 35 ASP 35 34 34 ASP ASP A . n A 1 36 THR 36 35 35 THR THR A . n A 1 37 ALA 37 36 36 ALA ALA A . n A 1 38 LYS 38 37 37 LYS LYS A . n A 1 39 SER 39 38 38 SER SER A . n A 1 40 ALA 40 39 39 ALA ALA A . n A 1 41 VAL 41 40 40 VAL VAL A . n A 1 42 ARG 42 41 41 ARG ARG A . n A 1 43 GLU 43 42 42 GLU GLU A . n A 1 44 MSE 44 43 43 MSE MSE A . n A 1 45 ALA 45 44 44 ALA ALA A . n A 1 46 LYS 46 45 45 LYS LYS A . n A 1 47 PHE 47 46 46 PHE PHE A . n A 1 48 ASP 48 47 47 ASP ASP A . n A 1 49 LEU 49 48 48 LEU LEU A . n A 1 50 PHE 50 49 49 PHE PHE A . n A 1 51 GLY 51 50 50 GLY GLY A . n A 1 52 TYR 52 51 51 TYR TYR A . n A 1 53 ASN 53 52 52 ASN ASN A . n A 1 54 ALA 54 53 53 ALA ALA A . n A 1 55 PHE 55 54 54 PHE PHE A . n A 1 56 GLU 56 55 55 GLU GLU A . n A 1 57 GLY 57 56 56 GLY GLY A . n A 1 58 ASN 58 57 57 ASN ASN A . n A 1 59 LYS 59 58 58 LYS LYS A . n A 1 60 TYR 60 59 59 TYR TYR A . n A 1 61 THR 61 60 60 THR THR A . n A 1 62 GLN 62 61 61 GLN GLN A . n A 1 63 LYS 63 62 62 LYS LYS A . n A 1 64 GLY 64 63 63 GLY GLY A . n A 1 65 ASN 65 64 64 ASN ASN A . n A 1 66 GLU 66 65 65 GLU GLU A . n A 1 67 LEU 67 66 66 LEU LEU A . n A 1 68 GLU 68 67 67 GLU GLU A . n A 1 69 GLU 69 68 68 GLU GLU A . n A 1 70 GLN 70 69 69 GLN GLN A . n A 1 71 ALA 71 70 70 ALA ALA A . n A 1 72 ILE 72 71 71 ILE ILE A . n A 1 73 LYS 73 72 72 LYS LYS A . n A 1 74 LEU 74 73 73 LEU LEU A . n A 1 75 SER 75 74 74 SER SER A . n A 1 76 GLY 76 75 75 GLY GLY A . n A 1 77 VAL 77 76 76 VAL VAL A . n A 1 78 THR 78 77 77 THR THR A . n A 1 79 ARG 79 78 78 ARG ARG A . n A 1 80 GLY 80 79 79 GLY GLY A . n A 1 81 LEU 81 80 80 LEU LEU A . n A 1 82 ALA 82 81 81 ALA ALA A . n A 1 83 LEU 83 82 82 LEU LEU A . n A 1 84 LYS 84 83 83 LYS LYS A . n A 1 85 LYS 85 84 84 LYS LYS A . n A 1 86 ASN 86 85 85 ASN ASN A . n A 1 87 THR 87 86 86 THR THR A . n A 1 88 GLU 88 87 87 GLU GLU A . n A 1 89 ARG 89 88 88 ARG ARG A . n A 1 90 ARG 90 89 89 ARG ARG A . n A 1 91 GLU 91 90 90 GLU GLU A . n A 1 92 ASN 92 91 91 ASN ASN A . n A 1 93 GLU 93 92 92 GLU GLU A . n A 1 94 PHE 94 93 93 PHE PHE A . n A 1 95 ILE 95 94 94 ILE ILE A . n A 1 96 THR 96 95 95 THR THR A . n A 1 97 GLY 97 96 96 GLY GLY A . n A 1 98 GLU 98 97 97 GLU GLU A . n A 1 99 CYS 99 98 98 CYS CYS A . n A 1 100 ASP 100 99 99 ASP ASP A . n A 1 101 ILE 101 100 100 ILE ILE A . n A 1 102 TYR 102 101 101 TYR TYR A . n A 1 103 VAL 103 102 102 VAL VAL A . n A 1 104 PRO 104 103 103 PRO PRO A . n A 1 105 SER 105 104 104 SER SER A . n A 1 106 ARG 106 105 105 ARG ARG A . n A 1 107 LYS 107 106 106 LYS LYS A . n A 1 108 LEU 108 107 107 LEU LEU A . n A 1 109 ILE 109 108 108 ILE ILE A . n A 1 110 ILE 110 109 109 ILE ILE A . n A 1 111 ASP 111 110 110 ASP ASP A . n A 1 112 THR 112 111 111 THR THR A . n A 1 113 LYS 113 112 112 LYS LYS A . n A 1 114 CYS 114 113 113 CYS CYS A . n A 1 115 SER 115 114 114 SER SER A . n A 1 116 TRP 116 115 115 TRP TRP A . n A 1 117 ASP 117 116 116 ASP ASP A . n A 1 118 ILE 118 117 117 ILE ILE A . n A 1 119 GLY 119 118 118 GLY GLY A . n A 1 120 SER 120 119 119 SER SER A . n A 1 121 HIS 121 120 120 HIS HIS A . n A 1 122 PRO 122 121 121 PRO PRO A . n A 1 123 PHE 123 122 122 PHE PHE A . n A 1 124 PHE 124 123 123 PHE PHE A . n A 1 125 THR 125 124 124 THR THR A . n A 1 126 ASP 126 125 125 ASP ASP A . n A 1 127 GLU 127 126 126 GLU GLU A . n A 1 128 ALA 128 127 127 ALA ALA A . n A 1 129 GLN 129 128 128 GLN GLN A . n A 1 130 GLU 130 129 129 GLU GLU A . n A 1 131 LYS 131 130 130 LYS LYS A . n A 1 132 ALA 132 131 131 ALA ALA A . n A 1 133 LYS 133 132 132 LYS LYS A . n A 1 134 LYS 134 133 133 LYS LYS A . n A 1 135 ALA 135 134 134 ALA ALA A . n A 1 136 GLY 136 135 135 GLY GLY A . n A 1 137 TYR 137 136 136 TYR TYR A . n A 1 138 ASP 138 137 137 ASP ASP A . n A 1 139 ILE 139 138 138 ILE ILE A . n A 1 140 GLN 140 139 139 GLN GLN A . n A 1 141 MSE 141 140 140 MSE MSE A . n A 1 142 GLN 142 141 141 GLN GLN A . n A 1 143 GLY 143 142 142 GLY GLY A . n A 1 144 TYR 144 143 143 TYR TYR A . n A 1 145 MSE 145 144 144 MSE MSE A . n A 1 146 TRP 146 145 145 TRP TRP A . n A 1 147 LEU 147 146 146 LEU LEU A . n A 1 148 TRP 148 147 147 TRP TRP A . n A 1 149 ASP 149 148 148 ASP ASP A . n A 1 150 CYS 150 149 149 CYS CYS A . n A 1 151 ASP 151 150 150 ASP ASP A . n A 1 152 GLN 152 151 151 GLN GLN A . n A 1 153 ALA 153 152 152 ALA ALA A . n A 1 154 GLN 154 153 153 GLN GLN A . n A 1 155 ILE 155 154 154 ILE ILE A . n A 1 156 ASP 156 155 155 ASP ASP A . n A 1 157 PHE 157 156 156 PHE PHE A . n A 1 158 VAL 158 157 157 VAL VAL A . n A 1 159 LEU 159 158 158 LEU LEU A . n A 1 160 PHE 160 159 159 PHE PHE A . n A 1 161 PRO 161 160 160 PRO PRO A . n A 1 162 THR 162 161 161 THR THR A . n A 1 163 PRO 163 162 162 PRO PRO A . n A 1 164 LEU 164 163 163 LEU LEU A . n A 1 165 ASN 165 164 164 ASN ASN A . n A 1 166 LEU 166 165 165 LEU LEU A . n A 1 167 ILE 167 166 166 ILE ILE A . n A 1 168 SER 168 167 167 SER SER A . n A 1 169 ALA 169 168 168 ALA ALA A . n A 1 170 TYR 170 169 169 TYR TYR A . n A 1 171 ASP 171 170 170 ASP ASP A . n A 1 172 SER 172 171 171 SER SER A . n A 1 173 ASP 173 172 172 ASP ASP A . n A 1 174 PHE 174 173 173 PHE PHE A . n A 1 175 LYS 175 174 174 LYS LYS A . n A 1 176 LEU 176 175 175 LEU LEU A . n A 1 177 ILE 177 176 176 ILE ILE A . n A 1 178 ASP 178 177 177 ASP ASP A . n A 1 179 LEU 179 178 178 LEU LEU A . n A 1 180 VAL 180 179 179 VAL VAL A . n A 1 181 GLU 181 180 180 GLU GLU A . n A 1 182 GLN 182 181 181 GLN GLN A . n A 1 183 ILE 183 182 182 ILE ILE A . n A 1 184 PRO 184 183 183 PRO PRO A . n A 1 185 GLN 185 184 184 GLN GLN A . n A 1 186 ILE 186 185 185 ILE ILE A . n A 1 187 ARG 187 186 186 ARG ARG A . n A 1 188 ARG 188 187 187 ARG ARG A . n A 1 189 ILE 189 188 188 ILE ILE A . n A 1 190 THR 190 189 189 THR THR A . n A 1 191 THR 191 190 190 THR THR A . n A 1 192 VAL 192 191 191 VAL VAL A . n A 1 193 ILE 193 192 192 ILE ILE A . n A 1 194 ILE 194 193 193 ILE ILE A . n A 1 195 GLN 195 194 194 GLN GLN A . n A 1 196 ARG 196 195 195 ARG ARG A . n A 1 197 ASP 197 196 196 ASP ASP A . n A 1 198 ASN 198 197 197 ASN ASN A . n A 1 199 GLU 199 198 198 GLU GLU A . n A 1 200 LEU 200 199 199 LEU LEU A . n A 1 201 ILE 201 200 200 ILE ILE A . n A 1 202 ASP 202 201 201 ASP ASP A . n A 1 203 LYS 203 202 202 LYS LYS A . n A 1 204 ILE 204 203 203 ILE ILE A . n A 1 205 LYS 205 204 204 LYS LYS A . n A 1 206 GLU 206 205 205 GLU GLU A . n A 1 207 ARG 207 206 206 ARG ARG A . n A 1 208 VAL 208 207 207 VAL VAL A . n A 1 209 SER 209 208 208 SER SER A . n A 1 210 ALA 210 209 209 ALA ALA A . n A 1 211 ALA 211 210 210 ALA ALA A . n A 1 212 GLN 212 211 211 GLN GLN A . n A 1 213 LYS 213 212 212 LYS LYS A . n A 1 214 TYR 214 213 213 TYR TYR A . n A 1 215 TYR 215 214 214 TYR TYR A . n A 1 216 ASP 216 215 215 ASP ASP A . n A 1 217 GLN 217 216 216 GLN GLN A . n A 1 218 LEU 218 217 217 LEU LEU A . n A 1 219 ILE 219 218 218 ILE ILE A . n A 1 220 SER 220 219 219 SER SER A . n A 1 221 GLU 221 220 220 GLU GLU A . n A 1 222 MSE 222 221 221 MSE MSE A . n A 1 223 SER 223 222 222 SER SER A . n # _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # 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 NA 1 223 1 NA NA A . C 3 CL 1 224 2 CL CL A . D 3 CL 1 225 3 CL CL A . E 4 GOL 1 226 4 GOL GOL A . F 5 PEG 1 227 5 PEG PEG A . G 5 PEG 1 228 6 PEG PEG A . H 6 HOH 1 229 7 HOH HOH A . H 6 HOH 2 230 8 HOH HOH A . H 6 HOH 3 231 9 HOH HOH A . H 6 HOH 4 232 10 HOH HOH A . H 6 HOH 5 233 11 HOH HOH A . H 6 HOH 6 234 12 HOH HOH A . H 6 HOH 7 235 13 HOH HOH A . H 6 HOH 8 236 14 HOH HOH A . H 6 HOH 9 237 15 HOH HOH A . H 6 HOH 10 238 16 HOH HOH A . H 6 HOH 11 239 17 HOH HOH A . H 6 HOH 12 240 18 HOH HOH A . H 6 HOH 13 241 19 HOH HOH A . H 6 HOH 14 242 20 HOH HOH A . H 6 HOH 15 243 21 HOH HOH A . H 6 HOH 16 244 22 HOH HOH A . H 6 HOH 17 245 23 HOH HOH A . H 6 HOH 18 246 24 HOH HOH A . H 6 HOH 19 247 25 HOH HOH A . H 6 HOH 20 248 26 HOH HOH A . H 6 HOH 21 249 27 HOH HOH A . H 6 HOH 22 250 28 HOH HOH A . H 6 HOH 23 251 29 HOH HOH A . H 6 HOH 24 252 30 HOH HOH A . H 6 HOH 25 253 31 HOH HOH A . H 6 HOH 26 254 32 HOH HOH A . H 6 HOH 27 255 33 HOH HOH A . H 6 HOH 28 256 34 HOH HOH A . H 6 HOH 29 257 35 HOH HOH A . H 6 HOH 30 258 36 HOH HOH A . H 6 HOH 31 259 37 HOH HOH A . H 6 HOH 32 260 38 HOH HOH A . H 6 HOH 33 261 39 HOH HOH A . H 6 HOH 34 262 40 HOH HOH A . H 6 HOH 35 263 41 HOH HOH A . H 6 HOH 36 264 42 HOH HOH A . H 6 HOH 37 265 43 HOH HOH A . H 6 HOH 38 266 44 HOH HOH A . H 6 HOH 39 267 45 HOH HOH A . H 6 HOH 40 268 46 HOH HOH A . H 6 HOH 41 269 47 HOH HOH A . H 6 HOH 42 270 48 HOH HOH A . H 6 HOH 43 271 49 HOH HOH A . H 6 HOH 44 272 50 HOH HOH A . H 6 HOH 45 273 51 HOH HOH A . H 6 HOH 46 274 52 HOH HOH A . H 6 HOH 47 275 53 HOH HOH A . H 6 HOH 48 276 54 HOH HOH A . H 6 HOH 49 277 55 HOH HOH A . H 6 HOH 50 278 56 HOH HOH A . H 6 HOH 51 279 57 HOH HOH A . H 6 HOH 52 280 58 HOH HOH A . H 6 HOH 53 281 59 HOH HOH A . H 6 HOH 54 282 60 HOH HOH A . H 6 HOH 55 283 61 HOH HOH A . H 6 HOH 56 284 62 HOH HOH A . H 6 HOH 57 285 63 HOH HOH A . H 6 HOH 58 286 64 HOH HOH A . H 6 HOH 59 287 65 HOH HOH A . H 6 HOH 60 288 66 HOH HOH A . H 6 HOH 61 289 67 HOH HOH A . H 6 HOH 62 290 68 HOH HOH A . H 6 HOH 63 291 69 HOH HOH A . H 6 HOH 64 292 70 HOH HOH A . H 6 HOH 65 293 71 HOH HOH A . H 6 HOH 66 294 72 HOH HOH A . H 6 HOH 67 295 73 HOH HOH A . H 6 HOH 68 296 74 HOH HOH A . H 6 HOH 69 297 75 HOH HOH A . H 6 HOH 70 298 76 HOH HOH A . H 6 HOH 71 299 77 HOH HOH A . H 6 HOH 72 300 78 HOH HOH A . H 6 HOH 73 301 79 HOH HOH A . H 6 HOH 74 302 80 HOH HOH A . H 6 HOH 75 303 81 HOH HOH A . H 6 HOH 76 304 82 HOH HOH A . H 6 HOH 77 305 83 HOH HOH A . H 6 HOH 78 306 84 HOH HOH A . H 6 HOH 79 307 85 HOH HOH A . H 6 HOH 80 308 86 HOH HOH A . H 6 HOH 81 309 87 HOH HOH A . H 6 HOH 82 310 88 HOH HOH A . H 6 HOH 83 311 89 HOH HOH A . H 6 HOH 84 312 90 HOH HOH A . H 6 HOH 85 313 91 HOH HOH A . H 6 HOH 86 314 92 HOH HOH A . H 6 HOH 87 315 93 HOH HOH A . H 6 HOH 88 316 94 HOH HOH A . H 6 HOH 89 317 95 HOH HOH A . H 6 HOH 90 318 96 HOH HOH A . H 6 HOH 91 319 97 HOH HOH A . H 6 HOH 92 320 98 HOH HOH A . H 6 HOH 93 321 99 HOH HOH A . H 6 HOH 94 322 100 HOH HOH A . H 6 HOH 95 323 101 HOH HOH A . H 6 HOH 96 324 102 HOH HOH A . H 6 HOH 97 325 103 HOH HOH A . H 6 HOH 98 326 104 HOH HOH A . H 6 HOH 99 327 105 HOH HOH A . H 6 HOH 100 328 106 HOH HOH A . H 6 HOH 101 329 107 HOH HOH A . H 6 HOH 102 330 108 HOH HOH A . H 6 HOH 103 331 109 HOH HOH A . H 6 HOH 104 332 110 HOH HOH A . H 6 HOH 105 333 111 HOH HOH A . H 6 HOH 106 334 112 HOH HOH A . H 6 HOH 107 335 113 HOH HOH A . H 6 HOH 108 336 114 HOH HOH A . H 6 HOH 109 337 115 HOH HOH A . H 6 HOH 110 338 116 HOH HOH A . H 6 HOH 111 339 117 HOH HOH A . H 6 HOH 112 340 118 HOH HOH A . H 6 HOH 113 341 119 HOH HOH A . H 6 HOH 114 342 120 HOH HOH A . H 6 HOH 115 343 121 HOH HOH A . H 6 HOH 116 344 122 HOH HOH A . H 6 HOH 117 345 123 HOH HOH A . H 6 HOH 118 346 124 HOH HOH A . H 6 HOH 119 347 125 HOH HOH A . H 6 HOH 120 348 126 HOH HOH A . H 6 HOH 121 349 127 HOH HOH A . H 6 HOH 122 350 128 HOH HOH 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 2 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 44 A MSE 43 ? MET SELENOMETHIONINE 3 A MSE 141 A MSE 140 ? MET SELENOMETHIONINE 4 A MSE 145 A MSE 144 ? MET SELENOMETHIONINE 5 A MSE 222 A MSE 221 ? 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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H # 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)' 7170 ? 1 MORE -107 ? 1 'SSA (A^2)' 32980 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_665 -y+1,x-y+1,z -0.5000000000 -0.8660254038 0.0000000000 56.6845000000 0.8660254038 -0.5000000000 0.0000000000 98.1804340016 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5000000000 0.8660254038 0.0000000000 -56.6845000000 -0.8660254038 -0.5000000000 0.0000000000 98.1804340016 0.0000000000 0.0000000000 1.0000000000 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 230 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id H _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OD2 ? A ASP 100 ? A ASP 99 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 OD1 ? A ASP 111 ? A ASP 110 ? 1_555 79.2 ? 2 OD2 ? A ASP 100 ? A ASP 99 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? A THR 112 ? A THR 111 ? 1_555 94.0 ? 3 OD1 ? A ASP 111 ? A ASP 110 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? A THR 112 ? A THR 111 ? 1_555 84.0 ? 4 OD2 ? A ASP 100 ? A ASP 99 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 282 ? 1_555 96.4 ? 5 OD1 ? A ASP 111 ? A ASP 110 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 282 ? 1_555 74.5 ? 6 O ? A THR 112 ? A THR 111 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 282 ? 1_555 153.8 ? 7 OD2 ? A ASP 100 ? A ASP 99 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 292 ? 1_555 174.0 ? 8 OD1 ? A ASP 111 ? A ASP 110 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 292 ? 1_555 106.1 ? 9 O ? A THR 112 ? A THR 111 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 292 ? 1_555 89.5 ? 10 O ? H HOH . ? A HOH 282 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 292 ? 1_555 82.4 ? 11 OD2 ? A ASP 100 ? A ASP 99 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 339 ? 1_555 77.4 ? 12 OD1 ? A ASP 111 ? A ASP 110 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 339 ? 1_555 156.5 ? 13 O ? A THR 112 ? A THR 111 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 339 ? 1_555 95.6 ? 14 O ? H HOH . ? A HOH 282 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 339 ? 1_555 110.1 ? 15 O ? H HOH . ? A HOH 292 ? 1_555 NA ? B NA . ? A NA 223 ? 1_555 O ? H HOH . ? A HOH 339 ? 1_555 97.4 ? # 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 2009-11-03 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2019-07-17 5 'Structure model' 1 4 2023-02-01 # _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' Advisory 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Author supporting evidence' 4 3 'Structure model' 'Refinement description' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Refinement description' 8 5 'Structure model' 'Database references' 9 5 '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 3 'Structure model' pdbx_struct_assembly_auth_evidence 2 3 'Structure model' software 3 4 'Structure model' software 4 4 'Structure model' struct_conn 5 5 'Structure model' database_2 6 5 'Structure model' struct_ref_seq_dif 7 5 'Structure model' struct_site # 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 3 'Structure model' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_software.classification' 4 4 'Structure model' '_software.contact_author' 5 4 'Structure model' '_software.contact_author_email' 6 4 'Structure model' '_software.language' 7 4 'Structure model' '_software.location' 8 4 'Structure model' '_software.name' 9 4 'Structure model' '_software.type' 10 4 'Structure model' '_software.version' 11 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 12 5 'Structure model' '_database_2.pdbx_DOI' 13 5 'Structure model' '_database_2.pdbx_database_accession' 14 5 'Structure model' '_struct_ref_seq_dif.details' 15 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] 'X-RAY DIFFRACTION' 1 ? refined 16.4930 50.1320 4.8850 0.0659 0.1047 0.2220 0.0401 0.0383 0.0102 1.8314 3.0234 2.0676 1.6467 -0.0608 0.7650 -0.0918 0.0200 0.0718 0.0755 -0.0487 -0.0591 -0.1049 -0.0081 -0.0102 'X-RAY DIFFRACTION' 2 ? refined -2.2360 39.6290 13.4440 0.0753 0.0911 0.3179 -0.0284 0.0219 0.0030 2.6639 1.2936 2.0191 -0.9338 -1.8523 0.2489 -0.0792 -0.0553 0.1346 -0.1395 -0.3007 -0.1183 -0.0201 0.2065 0.0717 'X-RAY DIFFRACTION' 3 ? refined 0.0250 43.6140 10.6700 0.0827 0.0478 0.1792 0.0229 0.0035 0.0263 3.1000 0.7296 0.8363 0.2285 -0.7357 0.1834 -0.0412 -0.0753 0.1164 0.1124 -0.4235 -0.0053 -0.0303 0.1097 -0.0780 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.selection_details _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection 'X-RAY DIFFRACTION' 1 1 A 0 A 53 ? . . . . ? 'X-RAY DIFFRACTION' 2 2 A 54 A 139 ? . . . . ? 'X-RAY DIFFRACTION' 3 3 A 140 A 222 ? . . . . ? # _phasing.method MAD # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal REFMAC 5.5.0053 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SOLVE . ? program 'Tom Terwilliger' terwilliger@LANL.gov phasing http://www.solve.lanl.gov/ ? ? 3 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 4 SCALA 3.2.5 5/04/2004 other 'Phil R. Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/scala.html Fortran_77 ? 5 PDB_EXTRACT 3.006 'June 11, 2008' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 6 MOSFLM . ? ? ? ? 'data reduction' ? ? ? 7 # _pdbx_entry_details.entry_id 3K93 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS CONSTRUCT (1-222) WAS EXPRESSED WITH THE PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. ; _pdbx_entry_details.has_ligand_of_interest ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 NE _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ARG _pdbx_validate_rmsd_angle.auth_seq_id_1 88 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CZ _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ARG _pdbx_validate_rmsd_angle.auth_seq_id_2 88 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 NH1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ARG _pdbx_validate_rmsd_angle.auth_seq_id_3 88 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 123.93 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 3.63 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.50 _pdbx_validate_rmsd_angle.linker_flag 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 ASN A 91 ? ? -128.55 -154.64 2 1 ILE A 176 ? ? -122.37 -65.29 # 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 ARG 10 ? NH1 ? A ARG 11 NH1 2 1 Y 1 A ARG 10 ? NH2 ? A ARG 11 NH2 3 1 Y 1 A LYS 24 ? CD ? A LYS 25 CD 4 1 Y 1 A LYS 24 ? CE ? A LYS 25 CE 5 1 Y 1 A LYS 24 ? NZ ? A LYS 25 NZ 6 1 Y 1 A LYS 27 ? CD ? A LYS 28 CD 7 1 Y 1 A LYS 27 ? CE ? A LYS 28 CE 8 1 Y 1 A LYS 27 ? NZ ? A LYS 28 NZ 9 1 Y 1 A GLU 68 ? CD ? A GLU 69 CD 10 1 Y 1 A GLU 68 ? OE1 ? A GLU 69 OE1 11 1 Y 1 A GLU 68 ? OE2 ? A GLU 69 OE2 12 1 Y 1 A LYS 72 ? CD ? A LYS 73 CD 13 1 Y 1 A LYS 72 ? CE ? A LYS 73 CE 14 1 Y 1 A LYS 72 ? NZ ? A LYS 73 NZ 15 1 Y 1 A LYS 83 ? CD ? A LYS 84 CD 16 1 Y 1 A LYS 83 ? CE ? A LYS 84 CE 17 1 Y 1 A LYS 83 ? NZ ? A LYS 84 NZ 18 1 Y 1 A LYS 132 ? CE ? A LYS 133 CE 19 1 Y 1 A LYS 132 ? NZ ? A LYS 133 NZ 20 1 Y 1 A LYS 133 ? CD ? A LYS 134 CD 21 1 Y 1 A LYS 133 ? CE ? A LYS 134 CE 22 1 Y 1 A LYS 133 ? NZ ? A LYS 134 NZ 23 1 Y 1 A LYS 202 ? CE ? A LYS 203 CE 24 1 Y 1 A LYS 202 ? NZ ? A LYS 203 NZ 25 1 Y 1 A LYS 204 ? CE ? A LYS 205 CE 26 1 Y 1 A LYS 204 ? NZ ? A LYS 205 NZ # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SODIUM ION' NA 3 'CHLORIDE ION' CL 4 GLYCEROL GOL 5 'DI(HYDROXYETHYL)ETHER' PEG 6 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #