data_2IAY # _entry.id 2IAY # _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 2IAY pdb_00002iay 10.2210/pdb2iay/pdb RCSB RCSB039357 ? ? WWPDB D_1000039357 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 368074 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 2IAY _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2006-09-08 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _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 'Structure of LP2179, the first representative of Pfam family PF08866, suggests a new fold with a role in amino-acid metabolism.' _citation.journal_abbrev 'Acta Crystallogr.,Sect.F' _citation.journal_volume 66 _citation.page_first 1205 _citation.page_last 1210 _citation.year 2010 _citation.journal_id_ASTM ? _citation.country DK _citation.journal_id_ISSN 1744-3091 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 20944212 _citation.pdbx_database_id_DOI 10.1107/S1744309109023689 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Bakolitsa, C.' 1 ? primary 'Kumar, A.' 2 ? primary 'Carlton, D.' 3 ? primary 'Miller, M.D.' 4 ? primary 'Krishna, S.S.' 5 ? primary 'Abdubek, P.' 6 ? primary 'Astakhova, T.' 7 ? primary 'Axelrod, H.L.' 8 ? primary 'Chiu, H.J.' 9 ? primary 'Clayton, T.' 10 ? primary 'Deller, M.C.' 11 ? primary 'Duan, L.' 12 ? primary 'Elsliger, M.A.' 13 ? primary 'Feuerhelm, J.' 14 ? primary 'Grzechnik, S.K.' 15 ? primary 'Grant, J.C.' 16 ? primary 'Han, G.W.' 17 ? primary 'Jaroszewski, L.' 18 ? primary 'Jin, K.K.' 19 ? primary 'Klock, H.E.' 20 ? primary 'Knuth, M.W.' 21 ? primary 'Kozbial, P.' 22 ? primary 'Marciano, D.' 23 ? primary 'McMullan, D.' 24 ? primary 'Morse, A.T.' 25 ? primary 'Nigoghossian, E.' 26 ? primary 'Okach, L.' 27 ? primary 'Oommachen, S.' 28 ? primary 'Paulsen, J.' 29 ? primary 'Reyes, R.' 30 ? primary 'Rife, C.L.' 31 ? primary 'Tien, H.J.' 32 ? primary 'Trout, C.V.' 33 ? primary 'van den Bedem, H.' 34 ? primary 'Weekes, D.' 35 ? primary 'Xu, Q.' 36 ? primary 'Hodgson, K.O.' 37 ? primary 'Wooley, J.' 38 ? primary 'Deacon, A.M.' 39 ? primary 'Godzik, A.' 40 ? primary 'Lesley, S.A.' 41 ? primary 'Wilson, I.A.' 42 ? # _cell.entry_id 2IAY _cell.length_a 36.289 _cell.length_b 47.896 _cell.length_c 58.010 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _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 2IAY _symmetry.Int_Tables_number 19 _symmetry.space_group_name_H-M 'P 21 21 21' _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 'Hypothetical protein' 12871.004 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 3 non-polymer syn GLYCEROL 92.094 1 ? ? ? ? 4 water nat water 18.015 195 ? ? ? ? # _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)AYTTTVKLDGDTKTYTLSPTVKKYTL(MSE)DLGFVKGRSGAFSFERSLDPTSPYQAAFKLK(MSE)TVNADLT GFK(MSE)TTVTGNGVQRANIFKNDAHPEAVEQLRYILANFIERDILTTD ; _entity_poly.pdbx_seq_one_letter_code_can ;GMAYTTTVKLDGDTKTYTLSPTVKKYTLMDLGFVKGRSGAFSFERSLDPTSPYQAAFKLKMTVNADLTGFKMTTVTGNGV QRANIFKNDAHPEAVEQLRYILANFIERDILTTD ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 368074 # 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 ALA n 1 4 TYR n 1 5 THR n 1 6 THR n 1 7 THR n 1 8 VAL n 1 9 LYS n 1 10 LEU n 1 11 ASP n 1 12 GLY n 1 13 ASP n 1 14 THR n 1 15 LYS n 1 16 THR n 1 17 TYR n 1 18 THR n 1 19 LEU n 1 20 SER n 1 21 PRO n 1 22 THR n 1 23 VAL n 1 24 LYS n 1 25 LYS n 1 26 TYR n 1 27 THR n 1 28 LEU n 1 29 MSE n 1 30 ASP n 1 31 LEU n 1 32 GLY n 1 33 PHE n 1 34 VAL n 1 35 LYS n 1 36 GLY n 1 37 ARG n 1 38 SER n 1 39 GLY n 1 40 ALA n 1 41 PHE n 1 42 SER n 1 43 PHE n 1 44 GLU n 1 45 ARG n 1 46 SER n 1 47 LEU n 1 48 ASP n 1 49 PRO n 1 50 THR n 1 51 SER n 1 52 PRO n 1 53 TYR n 1 54 GLN n 1 55 ALA n 1 56 ALA n 1 57 PHE n 1 58 LYS n 1 59 LEU n 1 60 LYS n 1 61 MSE n 1 62 THR n 1 63 VAL n 1 64 ASN n 1 65 ALA n 1 66 ASP n 1 67 LEU n 1 68 THR n 1 69 GLY n 1 70 PHE n 1 71 LYS n 1 72 MSE n 1 73 THR n 1 74 THR n 1 75 VAL n 1 76 THR n 1 77 GLY n 1 78 ASN n 1 79 GLY n 1 80 VAL n 1 81 GLN n 1 82 ARG n 1 83 ALA n 1 84 ASN n 1 85 ILE n 1 86 PHE n 1 87 LYS n 1 88 ASN n 1 89 ASP n 1 90 ALA n 1 91 HIS n 1 92 PRO n 1 93 GLU n 1 94 ALA n 1 95 VAL n 1 96 GLU n 1 97 GLN n 1 98 LEU n 1 99 ARG n 1 100 TYR n 1 101 ILE n 1 102 LEU n 1 103 ALA n 1 104 ASN n 1 105 PHE n 1 106 ILE n 1 107 GLU n 1 108 ARG n 1 109 ASP n 1 110 ILE n 1 111 LEU n 1 112 THR n 1 113 THR n 1 114 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 ? _entity_src_gen.gene_src_genus Lactobacillus _entity_src_gen.pdbx_gene_src_gene NP_785678.1 _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 'Lactobacillus plantarum' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 1590 _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 Escherichia _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 ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q88V95_LACPL _struct_ref.pdbx_db_accession Q88V95 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2IAY _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 114 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q88V95 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 113 _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 113 # 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 2IAY GLY A 1 ? UNP Q88V95 ? ? 'expression tag' 0 1 1 2IAY MSE A 2 ? UNP Q88V95 MET 1 'modified residue' 1 2 1 2IAY MSE A 29 ? UNP Q88V95 MET 28 'modified residue' 28 3 1 2IAY MSE A 61 ? UNP Q88V95 MET 60 'modified residue' 60 4 1 2IAY MSE A 72 ? UNP Q88V95 MET 71 'modified residue' 71 5 # 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 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 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 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 2IAY # loop_ _exptl_crystal.id _exptl_crystal.density_percent_sol _exptl_crystal.density_Matthews _exptl_crystal.description _exptl_crystal.density_meas _exptl_crystal.F_000 _exptl_crystal.preparation 1 37.17 1.96 ;THE STRUCTURE WAS SOLVED BY MAD METHOD USING A DIFFERENT CRYSTAL AND REFINED AGAINST A HIGHER RESOLUTION DATASET FROM CURRENT CRYSTAL. ; ? ? ? 2 ? ? ;THE STRUCTURE WAS SOLVED BY MAD METHOD USING A DIFFERENT CRYSTAL AND REFINED AGAINST A HIGHER RESOLUTION DATASET FROM CURRENT CRYSTAL. ; ? ? ? # loop_ _exptl_crystal_grow.crystal_id _exptl_crystal_grow.method _exptl_crystal_grow.pH _exptl_crystal_grow.temp _exptl_crystal_grow.pdbx_details _exptl_crystal_grow.temp_details _exptl_crystal_grow.pdbx_pH_range 1 'VAPOR DIFFUSION, SITTING DROP, NANODROP' 10.5 277 '0.2M NaCl, 20.0% PEG-8000, 0.1M CAPS, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K, pH 10.5' ? . 2 'VAPOR DIFFUSION, SITTING DROP, NANODROP' 9.0 277 '20.0% PEG-6000, 0.1M Bicine, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K, pH 9.0' ? . # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 100 ? 2 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.details _diffrn_detector.pdbx_collection_date 1 CCD 'ADSC QUANTUM 315' ? 2006-08-31 2 CCD 'MARMOSAIC 300 mm CCD' 'Adjustable focusing mirrors in K-B geometry' 2006-08-11 # _diffrn_radiation.diffrn_id 2 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111) Double Crystal Monochrometer' _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 0.9798 1.0 2 0.94926 1.0 3 0.97939 1.0 4 0.97925 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.type _diffrn_source.pdbx_wavelength_list _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_synchrotron_site 1 SYNCHROTRON 8.2.2 'ALS BEAMLINE 8.2.2' 0.9798 ? ALS 2 SYNCHROTRON 23-ID-D 'APS BEAMLINE 23-ID-D' 0.94926,0.97939,0.97925 ? APS # _reflns.entry_id 2IAY _reflns.d_resolution_high 1.198 _reflns.d_resolution_low 28.928 _reflns.number_obs 29115 _reflns.pdbx_Rmerge_I_obs 0.069 _reflns.pdbx_netI_over_sigmaI 6.100 _reflns.pdbx_Rsym_value 0.069 _reflns.pdbx_redundancy 6.200 _reflns.percent_possible_obs 90.400 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.B_iso_Wilson_estimate ? _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 2 # 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 1.20 1.23 ? 1663 ? 0.204 3.7 0.204 ? 1.40 ? 1165 50.70 1 2 1.23 1.26 ? 3706 ? 0.252 2.9 0.252 ? 2.50 ? 1467 66.00 2 2 1.26 1.30 ? 5204 ? 0.215 3.4 0.215 ? 3.10 ? 1681 76.30 3 2 1.30 1.34 ? 6899 ? 0.202 3.6 0.202 ? 3.80 ? 1823 84.30 4 2 1.34 1.39 ? 8891 ? 0.194 3.7 0.194 ? 4.60 ? 1918 92.00 5 2 1.39 1.43 ? 11761 ? 0.179 3.9 0.179 ? 5.80 ? 2030 99.40 6 2 1.43 1.49 ? 13363 ? 0.158 4.5 0.158 ? 6.80 ? 1963 99.80 7 2 1.49 1.55 ? 13028 ? 0.135 5.1 0.135 ? 6.90 ? 1894 100.00 8 2 1.55 1.62 ? 12539 ? 0.117 5.8 0.117 ? 6.90 ? 1816 99.90 9 2 1.62 1.70 ? 12091 ? 0.111 6.1 0.111 ? 6.90 ? 1751 100.00 10 2 1.70 1.79 ? 11497 ? 0.1 6.5 0.1 ? 6.90 ? 1674 100.00 11 2 1.79 1.90 ? 10879 ? 0.088 7.6 0.088 ? 6.80 ? 1594 100.00 12 2 1.90 2.03 ? 10112 ? 0.076 8.2 0.076 ? 6.80 ? 1478 100.00 13 2 2.03 2.19 ? 10076 ? 0.068 9.4 0.068 ? 7.20 ? 1390 99.90 14 2 2.19 2.40 ? 10119 ? 0.073 8.5 0.073 ? 7.80 ? 1297 99.90 15 2 2.40 2.68 ? 10446 ? 0.074 8.2 0.074 ? 9.00 ? 1164 99.70 16 2 2.68 3.10 ? 10243 ? 0.07 8.7 0.07 ? 9.80 ? 1042 99.30 17 2 3.10 3.79 ? 8285 ? 0.056 10.7 0.056 ? 9.40 ? 885 99.10 18 2 3.79 5.37 ? 7056 ? 0.049 12.0 0.049 ? 10.20 ? 691 97.90 19 2 5.37 28.92 ? 3578 ? 0.055 11.4 0.055 ? 9.10 ? 392 95.20 20 2 # _refine.entry_id 2IAY _refine.ls_d_res_high 1.200 _refine.ls_d_res_low 28.928 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 90.060 _refine.ls_number_reflns_obs 29080 _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. 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 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. A GLYCEROL MOLECULE FROM THE CRYO SOLUTION IS MODELED. 4. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.12 _refine.ls_R_factor_R_free 0.147 _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 1488 _refine.B_iso_mean 8.861 _refine.aniso_B[1][1] 0.850 _refine.aniso_B[2][2] -0.060 _refine.aniso_B[3][3] -0.800 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.980 _refine.correlation_coeff_Fo_to_Fc_free 0.977 _refine.pdbx_overall_ESU_R 0.039 _refine.pdbx_overall_ESU_R_Free 0.038 _refine.overall_SU_ML 0.023 _refine.overall_SU_B 1.142 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_obs 0.121 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 2 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 885 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 6 _refine_hist.number_atoms_solvent 195 _refine_hist.number_atoms_total 1086 _refine_hist.d_res_high 1.200 _refine_hist.d_res_low 28.928 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 976 0.016 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 656 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1340 1.646 1.971 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1621 0.997 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 136 5.894 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 41 31.103 23.902 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 176 12.632 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 6 15.509 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 160 0.097 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1096 0.009 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 202 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 178 0.217 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 680 0.199 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 483 0.186 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 514 0.090 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 116 0.153 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 16 0.189 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 56 0.293 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 39 0.129 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 644 2.727 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 243 1.519 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 993 3.211 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 405 4.840 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 335 5.678 11.000 ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 1822 2.275 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_free 200 8.569 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded 1605 4.255 3.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.200 _refine_ls_shell.d_res_low 1.232 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 49.130 _refine_ls_shell.number_reflns_R_work 1093 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.177 _refine_ls_shell.R_factor_R_free 0.213 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 61 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs 1154 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2IAY _struct.title 'Crystal structure of a duf1831 family protein (lp2179) from lactobacillus plantarum at 1.20 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text 'Structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, translation' _struct_keywords.pdbx_keywords TRANSLATION _struct_keywords.entry_id 2IAY # 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 4 ? # _struct_biol.id 1 # 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 LYS A 24 ? LEU A 31 ? LYS A 23 LEU A 30 1 ? 8 HELX_P HELX_P2 2 PHE A 86 ? ALA A 90 ? PHE A 85 ALA A 89 5 ? 5 HELX_P HELX_P3 3 HIS A 91 ? ARG A 108 ? HIS A 90 ARG A 107 1 ? 18 # _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 ? ? ? ? ? ? ? 1.325 ? ? covale2 covale both ? A MSE 2 C ? ? ? 1_555 A ALA 3 N ? ? A MSE 1 A ALA 2 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale3 covale both ? A LEU 28 C ? ? ? 1_555 A MSE 29 N ? ? A LEU 27 A MSE 28 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale4 covale both ? A MSE 29 C ? ? ? 1_555 A ASP 30 N ? ? A MSE 28 A ASP 29 1_555 ? ? ? ? ? ? ? 1.321 ? ? covale5 covale both ? A LYS 60 C ? ? ? 1_555 A MSE 61 N ? ? A LYS 59 A MSE 60 1_555 ? ? ? ? ? ? ? 1.341 ? ? covale6 covale both ? A MSE 61 C ? ? ? 1_555 A THR 62 N ? ? A MSE 60 A THR 61 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale7 covale both ? A LYS 71 C ? ? ? 1_555 A MSE 72 N ? ? A LYS 70 A MSE 71 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale8 covale both ? A MSE 72 C ? ? ? 1_555 A THR 73 N ? ? A MSE 71 A THR 72 1_555 ? ? ? ? ? ? ? 1.316 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 ? anti-parallel A 2 3 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-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 THR A 7 ? VAL A 8 ? THR A 6 VAL A 7 A 2 TYR A 17 ? LEU A 19 ? TYR A 16 LEU A 18 A 3 LEU A 111 ? THR A 113 ? LEU A 110 THR A 112 B 1 VAL A 34 ? LYS A 35 ? VAL A 33 LYS A 34 B 2 PHE A 41 ? LEU A 47 ? PHE A 40 LEU A 46 B 3 PHE A 57 ? VAL A 63 ? PHE A 56 VAL A 62 B 4 PHE A 70 ? THR A 76 ? PHE A 69 THR A 75 # 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 8 ? N VAL A 7 O TYR A 17 ? O TYR A 16 A 2 3 N THR A 18 ? N THR A 17 O THR A 112 ? O THR A 111 B 1 2 N VAL A 34 ? N VAL A 33 O SER A 42 ? O SER A 41 B 2 3 N ARG A 45 ? N ARG A 44 O LEU A 59 ? O LEU A 58 B 3 4 N LYS A 60 ? N LYS A 59 O THR A 73 ? O THR A 72 # 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 CL 114 ? 6 'BINDING SITE FOR RESIDUE CL A 114' AC2 Software A GOL 115 ? 7 'BINDING SITE FOR RESIDUE GOL A 115' # 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 GLY A 1 ? GLY A 0 . ? 1_555 ? 2 AC1 6 MSE A 2 ? MSE A 1 . ? 1_555 ? 3 AC1 6 ILE A 106 ? ILE A 105 . ? 4_465 ? 4 AC1 6 THR A 113 ? THR A 112 . ? 4_465 ? 5 AC1 6 HOH D . ? HOH A 223 . ? 1_555 ? 6 AC1 6 HOH D . ? HOH A 249 . ? 1_555 ? 7 AC2 7 GLU A 44 ? GLU A 43 . ? 1_555 ? 8 AC2 7 ARG A 45 ? ARG A 44 . ? 1_555 ? 9 AC2 7 SER A 46 ? SER A 45 . ? 1_555 ? 10 AC2 7 LYS A 58 ? LYS A 57 . ? 1_555 ? 11 AC2 7 ASP A 66 ? ASP A 65 . ? 2_674 ? 12 AC2 7 HOH D . ? HOH A 228 . ? 1_555 ? 13 AC2 7 HOH D . ? HOH A 234 . ? 1_555 ? # _atom_sites.entry_id 2IAY _atom_sites.fract_transf_matrix[1][1] 0.02756 _atom_sites.fract_transf_matrix[1][2] 0.00000 _atom_sites.fract_transf_matrix[1][3] 0.00000 _atom_sites.fract_transf_matrix[2][1] 0.00000 _atom_sites.fract_transf_matrix[2][2] 0.02088 _atom_sites.fract_transf_matrix[2][3] 0.00000 _atom_sites.fract_transf_matrix[3][1] 0.00000 _atom_sites.fract_transf_matrix[3][2] 0.00000 _atom_sites.fract_transf_matrix[3][3] 0.01724 _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 CL N O 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 ALA 3 2 2 ALA ALA A . n A 1 4 TYR 4 3 3 TYR TYR A . n A 1 5 THR 5 4 4 THR THR A . n A 1 6 THR 6 5 5 THR THR A . n A 1 7 THR 7 6 6 THR THR A . n A 1 8 VAL 8 7 7 VAL VAL A . n A 1 9 LYS 9 8 8 LYS LYS A . n A 1 10 LEU 10 9 9 LEU LEU A . n A 1 11 ASP 11 10 10 ASP ASP A . n A 1 12 GLY 12 11 11 GLY GLY A . n A 1 13 ASP 13 12 12 ASP ASP A . n A 1 14 THR 14 13 13 THR THR A . n A 1 15 LYS 15 14 14 LYS LYS A . n A 1 16 THR 16 15 15 THR THR A . n A 1 17 TYR 17 16 16 TYR TYR A . n A 1 18 THR 18 17 17 THR THR A . n A 1 19 LEU 19 18 18 LEU LEU A . n A 1 20 SER 20 19 19 SER SER A . n A 1 21 PRO 21 20 20 PRO PRO A . n A 1 22 THR 22 21 21 THR THR A . n A 1 23 VAL 23 22 22 VAL VAL A . n A 1 24 LYS 24 23 23 LYS LYS A . n A 1 25 LYS 25 24 24 LYS LYS A . n A 1 26 TYR 26 25 25 TYR TYR A . n A 1 27 THR 27 26 26 THR THR A . n A 1 28 LEU 28 27 27 LEU LEU A . n A 1 29 MSE 29 28 28 MSE MSE A . n A 1 30 ASP 30 29 29 ASP ASP A . n A 1 31 LEU 31 30 30 LEU LEU A . n A 1 32 GLY 32 31 31 GLY GLY A . n A 1 33 PHE 33 32 32 PHE PHE A . n A 1 34 VAL 34 33 33 VAL VAL A . n A 1 35 LYS 35 34 34 LYS LYS A . n A 1 36 GLY 36 35 35 GLY GLY A . n A 1 37 ARG 37 36 36 ARG ARG A . n A 1 38 SER 38 37 37 SER SER A . n A 1 39 GLY 39 38 38 GLY GLY A . n A 1 40 ALA 40 39 39 ALA ALA A . n A 1 41 PHE 41 40 40 PHE PHE A . n A 1 42 SER 42 41 41 SER SER A . n A 1 43 PHE 43 42 42 PHE PHE A . n A 1 44 GLU 44 43 43 GLU GLU A . n A 1 45 ARG 45 44 44 ARG ARG A . n A 1 46 SER 46 45 45 SER SER A . n A 1 47 LEU 47 46 46 LEU LEU A . n A 1 48 ASP 48 47 47 ASP ASP A . n A 1 49 PRO 49 48 48 PRO PRO A . n A 1 50 THR 50 49 49 THR THR A . n A 1 51 SER 51 50 50 SER SER A . n A 1 52 PRO 52 51 51 PRO PRO A . n A 1 53 TYR 53 52 52 TYR TYR A . n A 1 54 GLN 54 53 53 GLN GLN A . n A 1 55 ALA 55 54 54 ALA ALA A . n A 1 56 ALA 56 55 55 ALA ALA A . n A 1 57 PHE 57 56 56 PHE PHE A . n A 1 58 LYS 58 57 57 LYS LYS A . n A 1 59 LEU 59 58 58 LEU LEU A . n A 1 60 LYS 60 59 59 LYS LYS A . n A 1 61 MSE 61 60 60 MSE MSE A . n A 1 62 THR 62 61 61 THR THR A . n A 1 63 VAL 63 62 62 VAL VAL A . n A 1 64 ASN 64 63 63 ASN ASN A . n A 1 65 ALA 65 64 64 ALA ALA A . n A 1 66 ASP 66 65 65 ASP ASP A . n A 1 67 LEU 67 66 66 LEU LEU A . n A 1 68 THR 68 67 67 THR THR A . n A 1 69 GLY 69 68 68 GLY GLY A . n A 1 70 PHE 70 69 69 PHE PHE A . n A 1 71 LYS 71 70 70 LYS LYS A . n A 1 72 MSE 72 71 71 MSE MSE A . n A 1 73 THR 73 72 72 THR THR A . n A 1 74 THR 74 73 73 THR THR A . n A 1 75 VAL 75 74 74 VAL VAL A . n A 1 76 THR 76 75 75 THR THR A . n A 1 77 GLY 77 76 76 GLY GLY A . n A 1 78 ASN 78 77 77 ASN ASN A . n A 1 79 GLY 79 78 78 GLY GLY A . n A 1 80 VAL 80 79 79 VAL VAL A . n A 1 81 GLN 81 80 80 GLN GLN A . n A 1 82 ARG 82 81 81 ARG ARG A . n A 1 83 ALA 83 82 82 ALA ALA A . n A 1 84 ASN 84 83 83 ASN ASN A . n A 1 85 ILE 85 84 84 ILE ILE A . n A 1 86 PHE 86 85 85 PHE PHE A . n A 1 87 LYS 87 86 86 LYS LYS A . n A 1 88 ASN 88 87 87 ASN ASN A . n A 1 89 ASP 89 88 88 ASP ASP A . n A 1 90 ALA 90 89 89 ALA ALA A . n A 1 91 HIS 91 90 90 HIS HIS A . n A 1 92 PRO 92 91 91 PRO PRO A . n A 1 93 GLU 93 92 92 GLU GLU A . n A 1 94 ALA 94 93 93 ALA ALA A . n A 1 95 VAL 95 94 94 VAL VAL A . n A 1 96 GLU 96 95 95 GLU GLU A . n A 1 97 GLN 97 96 96 GLN GLN A . n A 1 98 LEU 98 97 97 LEU LEU A . n A 1 99 ARG 99 98 98 ARG ARG A . n A 1 100 TYR 100 99 99 TYR TYR A . n A 1 101 ILE 101 100 100 ILE ILE A . n A 1 102 LEU 102 101 101 LEU LEU A . n A 1 103 ALA 103 102 102 ALA ALA A . n A 1 104 ASN 104 103 103 ASN ASN A . n A 1 105 PHE 105 104 104 PHE PHE A . n A 1 106 ILE 106 105 105 ILE ILE A . n A 1 107 GLU 107 106 106 GLU GLU A . n A 1 108 ARG 108 107 107 ARG ARG A . n A 1 109 ASP 109 108 108 ASP ASP A . n A 1 110 ILE 110 109 109 ILE ILE A . n A 1 111 LEU 111 110 110 LEU LEU A . n A 1 112 THR 112 111 111 THR THR A . n A 1 113 THR 113 112 112 THR THR A . n A 1 114 ASP 114 113 113 ASP ASP 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 CL 1 114 2 CL CL A . C 3 GOL 1 115 1 GOL GOL A . D 4 HOH 1 116 3 HOH HOH A . D 4 HOH 2 117 4 HOH HOH A . D 4 HOH 3 118 5 HOH HOH A . D 4 HOH 4 119 6 HOH HOH A . D 4 HOH 5 120 7 HOH HOH A . D 4 HOH 6 121 8 HOH HOH A . D 4 HOH 7 122 9 HOH HOH A . D 4 HOH 8 123 10 HOH HOH A . D 4 HOH 9 124 11 HOH HOH A . D 4 HOH 10 125 12 HOH HOH A . D 4 HOH 11 126 13 HOH HOH A . D 4 HOH 12 127 14 HOH HOH A . D 4 HOH 13 128 15 HOH HOH A . D 4 HOH 14 129 16 HOH HOH A . D 4 HOH 15 130 17 HOH HOH A . D 4 HOH 16 131 18 HOH HOH A . D 4 HOH 17 132 19 HOH HOH A . D 4 HOH 18 133 20 HOH HOH A . D 4 HOH 19 134 21 HOH HOH A . D 4 HOH 20 135 22 HOH HOH A . D 4 HOH 21 136 23 HOH HOH A . D 4 HOH 22 137 24 HOH HOH A . D 4 HOH 23 138 25 HOH HOH A . D 4 HOH 24 139 26 HOH HOH A . D 4 HOH 25 140 27 HOH HOH A . D 4 HOH 26 141 28 HOH HOH A . D 4 HOH 27 142 29 HOH HOH A . D 4 HOH 28 143 30 HOH HOH A . D 4 HOH 29 144 31 HOH HOH A . D 4 HOH 30 145 32 HOH HOH A . D 4 HOH 31 146 33 HOH HOH A . D 4 HOH 32 147 34 HOH HOH A . D 4 HOH 33 148 35 HOH HOH A . D 4 HOH 34 149 36 HOH HOH A . D 4 HOH 35 150 37 HOH HOH A . D 4 HOH 36 151 38 HOH HOH A . D 4 HOH 37 152 39 HOH HOH A . D 4 HOH 38 153 40 HOH HOH A . D 4 HOH 39 154 41 HOH HOH A . D 4 HOH 40 155 42 HOH HOH A . D 4 HOH 41 156 43 HOH HOH A . D 4 HOH 42 157 44 HOH HOH A . D 4 HOH 43 158 45 HOH HOH A . D 4 HOH 44 159 46 HOH HOH A . D 4 HOH 45 160 47 HOH HOH A . D 4 HOH 46 161 48 HOH HOH A . D 4 HOH 47 162 49 HOH HOH A . D 4 HOH 48 163 50 HOH HOH A . D 4 HOH 49 164 51 HOH HOH A . D 4 HOH 50 165 52 HOH HOH A . D 4 HOH 51 166 53 HOH HOH A . D 4 HOH 52 167 54 HOH HOH A . D 4 HOH 53 168 55 HOH HOH A . D 4 HOH 54 169 56 HOH HOH A . D 4 HOH 55 170 57 HOH HOH A . D 4 HOH 56 171 58 HOH HOH A . D 4 HOH 57 172 59 HOH HOH A . D 4 HOH 58 173 60 HOH HOH A . D 4 HOH 59 174 61 HOH HOH A . D 4 HOH 60 175 62 HOH HOH A . D 4 HOH 61 176 63 HOH HOH A . D 4 HOH 62 177 64 HOH HOH A . D 4 HOH 63 178 65 HOH HOH A . D 4 HOH 64 179 66 HOH HOH A . D 4 HOH 65 180 67 HOH HOH A . D 4 HOH 66 181 68 HOH HOH A . D 4 HOH 67 182 69 HOH HOH A . D 4 HOH 68 183 70 HOH HOH A . D 4 HOH 69 184 71 HOH HOH A . D 4 HOH 70 185 72 HOH HOH A . D 4 HOH 71 186 73 HOH HOH A . D 4 HOH 72 187 74 HOH HOH A . D 4 HOH 73 188 75 HOH HOH A . D 4 HOH 74 189 76 HOH HOH A . D 4 HOH 75 190 77 HOH HOH A . D 4 HOH 76 191 78 HOH HOH A . D 4 HOH 77 192 79 HOH HOH A . D 4 HOH 78 193 80 HOH HOH A . D 4 HOH 79 194 81 HOH HOH A . D 4 HOH 80 195 82 HOH HOH A . D 4 HOH 81 196 83 HOH HOH A . D 4 HOH 82 197 84 HOH HOH A . D 4 HOH 83 198 85 HOH HOH A . D 4 HOH 84 199 86 HOH HOH A . D 4 HOH 85 200 87 HOH HOH A . D 4 HOH 86 201 88 HOH HOH A . D 4 HOH 87 202 89 HOH HOH A . D 4 HOH 88 203 90 HOH HOH A . D 4 HOH 89 204 91 HOH HOH A . D 4 HOH 90 205 92 HOH HOH A . D 4 HOH 91 206 93 HOH HOH A . D 4 HOH 92 207 94 HOH HOH A . D 4 HOH 93 208 95 HOH HOH A . D 4 HOH 94 209 96 HOH HOH A . D 4 HOH 95 210 97 HOH HOH A . D 4 HOH 96 211 98 HOH HOH A . D 4 HOH 97 212 99 HOH HOH A . D 4 HOH 98 213 100 HOH HOH A . D 4 HOH 99 214 101 HOH HOH A . D 4 HOH 100 215 102 HOH HOH A . D 4 HOH 101 216 103 HOH HOH A . D 4 HOH 102 217 104 HOH HOH A . D 4 HOH 103 218 105 HOH HOH A . D 4 HOH 104 219 106 HOH HOH A . D 4 HOH 105 220 107 HOH HOH A . D 4 HOH 106 221 108 HOH HOH A . D 4 HOH 107 222 109 HOH HOH A . D 4 HOH 108 223 110 HOH HOH A . D 4 HOH 109 224 111 HOH HOH A . D 4 HOH 110 225 112 HOH HOH A . D 4 HOH 111 226 113 HOH HOH A . D 4 HOH 112 227 114 HOH HOH A . D 4 HOH 113 228 115 HOH HOH A . D 4 HOH 114 229 116 HOH HOH A . D 4 HOH 115 230 117 HOH HOH A . D 4 HOH 116 231 118 HOH HOH A . D 4 HOH 117 232 119 HOH HOH A . D 4 HOH 118 233 120 HOH HOH A . D 4 HOH 119 234 121 HOH HOH A . D 4 HOH 120 235 122 HOH HOH A . D 4 HOH 121 236 123 HOH HOH A . D 4 HOH 122 237 124 HOH HOH A . D 4 HOH 123 238 125 HOH HOH A . D 4 HOH 124 239 126 HOH HOH A . D 4 HOH 125 240 127 HOH HOH A . D 4 HOH 126 241 128 HOH HOH A . D 4 HOH 127 242 129 HOH HOH A . D 4 HOH 128 243 130 HOH HOH A . D 4 HOH 129 244 131 HOH HOH A . D 4 HOH 130 245 132 HOH HOH A . D 4 HOH 131 246 133 HOH HOH A . D 4 HOH 132 247 134 HOH HOH A . D 4 HOH 133 248 135 HOH HOH A . D 4 HOH 134 249 136 HOH HOH A . D 4 HOH 135 250 137 HOH HOH A . D 4 HOH 136 251 138 HOH HOH A . D 4 HOH 137 252 139 HOH HOH A . D 4 HOH 138 253 140 HOH HOH A . D 4 HOH 139 254 141 HOH HOH A . D 4 HOH 140 255 142 HOH HOH A . D 4 HOH 141 256 143 HOH HOH A . D 4 HOH 142 257 144 HOH HOH A . D 4 HOH 143 258 145 HOH HOH A . D 4 HOH 144 259 146 HOH HOH A . D 4 HOH 145 260 147 HOH HOH A . D 4 HOH 146 261 148 HOH HOH A . D 4 HOH 147 262 149 HOH HOH A . D 4 HOH 148 263 150 HOH HOH A . D 4 HOH 149 264 151 HOH HOH A . D 4 HOH 150 265 152 HOH HOH A . D 4 HOH 151 266 153 HOH HOH A . D 4 HOH 152 267 154 HOH HOH A . D 4 HOH 153 268 155 HOH HOH A . D 4 HOH 154 269 156 HOH HOH A . D 4 HOH 155 270 157 HOH HOH A . D 4 HOH 156 271 158 HOH HOH A . D 4 HOH 157 272 159 HOH HOH A . D 4 HOH 158 273 160 HOH HOH A . D 4 HOH 159 274 161 HOH HOH A . D 4 HOH 160 275 162 HOH HOH A . D 4 HOH 161 276 163 HOH HOH A . D 4 HOH 162 277 164 HOH HOH A . D 4 HOH 163 278 165 HOH HOH A . D 4 HOH 164 279 166 HOH HOH A . D 4 HOH 165 280 167 HOH HOH A . D 4 HOH 166 281 168 HOH HOH A . D 4 HOH 167 282 169 HOH HOH A . D 4 HOH 168 283 170 HOH HOH A . D 4 HOH 169 284 171 HOH HOH A . D 4 HOH 170 285 172 HOH HOH A . D 4 HOH 171 286 173 HOH HOH A . D 4 HOH 172 287 174 HOH HOH A . D 4 HOH 173 288 175 HOH HOH A . D 4 HOH 174 289 176 HOH HOH A . D 4 HOH 175 290 177 HOH HOH A . D 4 HOH 176 291 178 HOH HOH A . D 4 HOH 177 292 179 HOH HOH A . D 4 HOH 178 293 180 HOH HOH A . D 4 HOH 179 294 181 HOH HOH A . D 4 HOH 180 295 182 HOH HOH A . D 4 HOH 181 296 183 HOH HOH A . D 4 HOH 182 297 184 HOH HOH A . D 4 HOH 183 298 185 HOH HOH A . D 4 HOH 184 299 186 HOH HOH A . D 4 HOH 185 300 187 HOH HOH A . D 4 HOH 186 301 188 HOH HOH A . D 4 HOH 187 302 189 HOH HOH A . D 4 HOH 188 303 190 HOH HOH A . D 4 HOH 189 304 191 HOH HOH A . D 4 HOH 190 305 192 HOH HOH A . D 4 HOH 191 306 193 HOH HOH A . D 4 HOH 192 307 194 HOH HOH A . D 4 HOH 193 308 195 HOH HOH A . D 4 HOH 194 309 196 HOH HOH A . D 4 HOH 195 310 197 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 29 A MSE 28 ? MET SELENOMETHIONINE 3 A MSE 61 A MSE 60 ? MET SELENOMETHIONINE 4 A MSE 72 A MSE 71 ? 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,C,D # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2006-10-10 2 'Structure model' 1 1 2008-04-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-18 5 'Structure model' 1 4 2023-01-25 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Non-polymer description' 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Refinement description' 5 5 'Structure model' 'Database references' 6 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 4 'Structure model' software 2 5 'Structure model' database_2 3 5 'Structure model' struct_conn 4 5 'Structure model' struct_ref_seq_dif 5 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 4 'Structure model' '_software.classification' 2 4 'Structure model' '_software.name' 3 5 'Structure model' '_database_2.pdbx_DOI' 4 5 'Structure model' '_database_2.pdbx_database_accession' 5 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 5 'Structure model' '_struct_ref_seq_dif.details' 7 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 8 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 9 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _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 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 1 SOLVE . ? package 'Tom Terwilliger' terwilliger@LANL.gov phasing http://www.solve.lanl.gov/ ? ? 2 REFMAC 5.2.0019 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 3 SCALA . ? other 'Phil Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/INDEX.html Fortran_77 ? 4 PDB_EXTRACT 2.000 'April. 3, 2006' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 5 MOSFLM . ? ? ? ? 'data reduction' ? ? ? 6 CCP4 '(SCALA)' ? ? ? ? 'data scaling' ? ? ? 7 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 NE A ARG 81 ? ? CZ A ARG 81 ? ? NH1 A ARG 81 ? ? 123.51 120.30 3.21 0.50 N 2 1 NE A ARG 81 ? ? CZ A ARG 81 ? ? NH2 A ARG 81 ? ? 116.31 120.30 -3.99 0.50 N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id VAL _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 79 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -125.09 _pdbx_validate_torsion.psi -51.14 # 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 LYS 8 ? NZ ? A LYS 9 NZ 2 1 Y 1 A LYS 59 ? NZ ? A LYS 60 NZ 3 1 Y 1 A LYS 86 ? CG ? A LYS 87 CG 4 1 Y 1 A LYS 86 ? CD ? A LYS 87 CD 5 1 Y 1 A LYS 86 ? CE ? A LYS 87 CE 6 1 Y 1 A LYS 86 ? NZ ? A LYS 87 NZ 7 1 N 1 A GOL 115 ? O1 ? C GOL 1 O1 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 GLYCEROL GOL 4 water HOH #