data_2ETD # _entry.id 2ETD # _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 2ETD pdb_00002etd 10.2210/pdb2etd/pdb RCSB RCSB035068 ? ? WWPDB D_1000035068 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 358514 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 2ETD _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2005-10-27 _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 'Crystal structure of LEMA protein (tm0961) from THERMOTOGA MARITIMA at 2.28 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.length_a 80.454 _cell.length_b 85.259 _cell.length_c 53.397 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 2ETD _cell.pdbx_unique_axis ? _cell.Z_PDB 8 # _symmetry.Int_Tables_number 21 _symmetry.space_group_name_H-M 'C 2 2 2' _symmetry.entry_id 2ETD _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 'lemA protein' 19949.291 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 3 water nat water 18.015 62 ? ? ? ? # _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 ;(MSE)GSD(MLY)IHHHHHHLVSLEQEVQE(MLY)YSQIQNQLQRRADLIPNLVETV(MLY)GYAAHE(MLY)EILEEIA NARA(MLY)LIGA(MLY)TPQESAQADAELSSALSRLLAIAENYPNL(MLY)ADANFRQL(MSE)DELAGTENRIAVARR DYNEAV(MLY)(MLY)YNTAI(MLY)(MLY)FPGVIFA(MLY)(MSE)FGFEE(MLY)QYFEA(MLY)PGAEEVPEV (MLY)F ; _entity_poly.pdbx_seq_one_letter_code_can ;MGSDKIHHHHHHLVSLEQEVQEKYSQIQNQLQRRADLIPNLVETVKGYAAHEKEILEEIANARAKLIGAKTPQESAQADA ELSSALSRLLAIAENYPNLKADANFRQLMDELAGTENRIAVARRDYNEAVKKYNTAIKKFPGVIFAKMFGFEEKQYFEAK PGAEEVPEVKF ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 358514 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MSE n 1 2 GLY n 1 3 SER n 1 4 ASP n 1 5 MLY n 1 6 ILE n 1 7 HIS n 1 8 HIS n 1 9 HIS n 1 10 HIS n 1 11 HIS n 1 12 HIS n 1 13 LEU n 1 14 VAL n 1 15 SER n 1 16 LEU n 1 17 GLU n 1 18 GLN n 1 19 GLU n 1 20 VAL n 1 21 GLN n 1 22 GLU n 1 23 MLY n 1 24 TYR n 1 25 SER n 1 26 GLN n 1 27 ILE n 1 28 GLN n 1 29 ASN n 1 30 GLN n 1 31 LEU n 1 32 GLN n 1 33 ARG n 1 34 ARG n 1 35 ALA n 1 36 ASP n 1 37 LEU n 1 38 ILE n 1 39 PRO n 1 40 ASN n 1 41 LEU n 1 42 VAL n 1 43 GLU n 1 44 THR n 1 45 VAL n 1 46 MLY n 1 47 GLY n 1 48 TYR n 1 49 ALA n 1 50 ALA n 1 51 HIS n 1 52 GLU n 1 53 MLY n 1 54 GLU n 1 55 ILE n 1 56 LEU n 1 57 GLU n 1 58 GLU n 1 59 ILE n 1 60 ALA n 1 61 ASN n 1 62 ALA n 1 63 ARG n 1 64 ALA n 1 65 MLY n 1 66 LEU n 1 67 ILE n 1 68 GLY n 1 69 ALA n 1 70 MLY n 1 71 THR n 1 72 PRO n 1 73 GLN n 1 74 GLU n 1 75 SER n 1 76 ALA n 1 77 GLN n 1 78 ALA n 1 79 ASP n 1 80 ALA n 1 81 GLU n 1 82 LEU n 1 83 SER n 1 84 SER n 1 85 ALA n 1 86 LEU n 1 87 SER n 1 88 ARG n 1 89 LEU n 1 90 LEU n 1 91 ALA n 1 92 ILE n 1 93 ALA n 1 94 GLU n 1 95 ASN n 1 96 TYR n 1 97 PRO n 1 98 ASN n 1 99 LEU n 1 100 MLY n 1 101 ALA n 1 102 ASP n 1 103 ALA n 1 104 ASN n 1 105 PHE n 1 106 ARG n 1 107 GLN n 1 108 LEU n 1 109 MSE n 1 110 ASP n 1 111 GLU n 1 112 LEU n 1 113 ALA n 1 114 GLY n 1 115 THR n 1 116 GLU n 1 117 ASN n 1 118 ARG n 1 119 ILE n 1 120 ALA n 1 121 VAL n 1 122 ALA n 1 123 ARG n 1 124 ARG n 1 125 ASP n 1 126 TYR n 1 127 ASN n 1 128 GLU n 1 129 ALA n 1 130 VAL n 1 131 MLY n 1 132 MLY n 1 133 TYR n 1 134 ASN n 1 135 THR n 1 136 ALA n 1 137 ILE n 1 138 MLY n 1 139 MLY n 1 140 PHE n 1 141 PRO n 1 142 GLY n 1 143 VAL n 1 144 ILE n 1 145 PHE n 1 146 ALA n 1 147 MLY n 1 148 MSE n 1 149 PHE n 1 150 GLY n 1 151 PHE n 1 152 GLU n 1 153 GLU n 1 154 MLY n 1 155 GLN n 1 156 TYR n 1 157 PHE n 1 158 GLU n 1 159 ALA n 1 160 MLY n 1 161 PRO n 1 162 GLY n 1 163 ALA n 1 164 GLU n 1 165 GLU n 1 166 VAL n 1 167 PRO n 1 168 GLU n 1 169 VAL n 1 170 MLY n 1 171 PHE 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 Thermotoga _entity_src_gen.pdbx_gene_src_gene tm0961 _entity_src_gen.gene_src_species 'Thermotoga maritima' _entity_src_gen.gene_src_strain MSB8 _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 'Thermotoga maritima' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 243274 _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 HK100 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9X056_THEMA _struct_ref.pdbx_db_accession Q9X056 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;LVSLEQEVQEKYSQIQNQLQRRADLIPNLVETVKGYAAHEKEILEEIANARAKLIGAKTPQESAQADAELSSALSRLLAI AENYPNLKADANFRQLMDELAGTENRIAVARRDYNEAVKKYNTAIKKFPGVIFAKMFGFEEKQYFEAKPGAEEVPEVKF ; _struct_ref.pdbx_align_begin 35 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2ETD _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 13 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 171 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9X056 _struct_ref_seq.db_align_beg 35 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 193 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 35 _struct_ref_seq.pdbx_auth_seq_align_end 193 # 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 2ETD MSE A 1 ? UNP Q9X056 ? ? 'expression tag' -11 1 1 2ETD GLY A 2 ? UNP Q9X056 ? ? 'expression tag' -10 2 1 2ETD SER A 3 ? UNP Q9X056 ? ? 'expression tag' -9 3 1 2ETD ASP A 4 ? UNP Q9X056 ? ? 'expression tag' -8 4 1 2ETD MLY A 5 ? UNP Q9X056 ? ? 'expression tag' -7 5 1 2ETD ILE A 6 ? UNP Q9X056 ? ? 'expression tag' -6 6 1 2ETD HIS A 7 ? UNP Q9X056 ? ? 'expression tag' -5 7 1 2ETD HIS A 8 ? UNP Q9X056 ? ? 'expression tag' -4 8 1 2ETD HIS A 9 ? UNP Q9X056 ? ? 'expression tag' -3 9 1 2ETD HIS A 10 ? UNP Q9X056 ? ? 'expression tag' -2 10 1 2ETD HIS A 11 ? UNP Q9X056 ? ? 'expression tag' -1 11 1 2ETD HIS A 12 ? UNP Q9X056 ? ? 'expression tag' 0 12 1 2ETD MLY A 23 ? UNP Q9X056 LYS 45 'modified residue' 45 13 1 2ETD MLY A 46 ? UNP Q9X056 LYS 68 'modified residue' 68 14 1 2ETD MLY A 53 ? UNP Q9X056 LYS 75 'modified residue' 75 15 1 2ETD MLY A 65 ? UNP Q9X056 LYS 87 'modified residue' 87 16 1 2ETD MLY A 70 ? UNP Q9X056 LYS 92 'modified residue' 92 17 1 2ETD MLY A 100 ? UNP Q9X056 LYS 122 'modified residue' 122 18 1 2ETD MSE A 109 ? UNP Q9X056 MET 131 'modified residue' 131 19 1 2ETD MLY A 131 ? UNP Q9X056 LYS 153 'modified residue' 153 20 1 2ETD MLY A 132 ? UNP Q9X056 LYS 154 'modified residue' 154 21 1 2ETD MLY A 138 ? UNP Q9X056 LYS 160 'modified residue' 160 22 1 2ETD MLY A 139 ? UNP Q9X056 LYS 161 'modified residue' 161 23 1 2ETD MLY A 147 ? UNP Q9X056 LYS 169 'modified residue' 169 24 1 2ETD MSE A 148 ? UNP Q9X056 MET 170 'modified residue' 170 25 1 2ETD MLY A 154 ? UNP Q9X056 LYS 176 'modified residue' 176 26 1 2ETD MLY A 160 ? UNP Q9X056 LYS 182 'modified residue' 182 27 1 2ETD MLY A 170 ? UNP Q9X056 LYS 192 'modified residue' 192 28 # 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 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 MLY 'L-peptide linking' n N-DIMETHYL-LYSINE ? 'C8 H18 N2 O2' 174.241 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 2ETD # _exptl_crystal.id 1 _exptl_crystal.density_percent_sol 46.39 _exptl_crystal.density_Matthews 2.29 _exptl_crystal.description ? _exptl_crystal.density_meas ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION,SITTING DROP,NANODROP' _exptl_crystal_grow.pH 6.3 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '0.2M NH4NO3, 20.0% PEG-3350, No Buffer pH 6.3 , VAPOR DIFFUSION,SITTING DROP,NANODROP, 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 'ADSC QUANTUM 315' _diffrn_detector.details ? _diffrn_detector.pdbx_collection_date 2005-09-09 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.monochromator 'DOUBLE CRYSTAL SI(111)' _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.0163 1.0 2 0.9797 1.0 3 0.9796 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.type 'ALS BEAMLINE 8.2.2' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '1.0163, 0.9797, 0.9796' _diffrn_source.pdbx_synchrotron_site ALS # _reflns.entry_id 2ETD _reflns.d_resolution_low 30.00 _reflns.d_resolution_high 2.25 _reflns.number_obs 8126 _reflns.percent_possible_obs 90.100 _reflns.pdbx_Rmerge_I_obs 0.067 _reflns.pdbx_chi_squared 1.030 _reflns.pdbx_redundancy 3.500 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_netI_over_sigmaI ? _reflns.pdbx_Rsym_value ? _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_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_low _reflns_shell.d_res_high _reflns_shell.number_measured_obs _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_I_obs _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.number_unique_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.percent_possible_all _reflns_shell.number_unique_all _reflns_shell.number_measured_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.33 2.25 549 62.000 0.332 1.080 3.500 ? ? ? ? ? ? 1 1 2.42 2.33 872 99.900 0.177 1.043 3.600 ? ? ? ? ? ? 2 1 2.53 2.42 887 99.300 0.158 1.060 3.600 ? ? ? ? ? ? 3 1 2.67 2.53 894 99.800 0.144 1.066 3.600 ? ? ? ? ? ? 4 1 2.83 2.67 876 99.300 0.112 1.002 3.600 ? ? ? ? ? ? 5 1 3.05 2.83 889 99.200 0.088 0.996 3.600 ? ? ? ? ? ? 6 1 3.36 3.05 876 98.500 0.077 1.017 3.600 ? ? ? ? ? ? 7 1 3.85 3.36 587 64.900 0.078 0.994 3.300 ? ? ? ? ? ? 8 1 4.84 3.85 779 84.500 0.054 1.039 3.500 ? ? ? ? ? ? 9 1 30.00 4.84 917 94.300 0.041 1.012 3.400 ? ? ? ? ? ? 10 1 # _refine.ls_d_res_high 2.280 _refine.ls_d_res_low 26.70 _refine.ls_percent_reflns_obs 93.030 _refine.ls_number_reflns_obs 7717 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.ls_R_factor_all 0.219 _refine.ls_R_factor_R_work 0.216 _refine.ls_R_factor_R_free 0.27 _refine.ls_percent_reflns_R_free 4.600 _refine.ls_number_reflns_R_free 375 _refine.B_iso_mean 40.488 _refine.aniso_B[1][1] -1.660 _refine.aniso_B[2][2] 1.780 _refine.aniso_B[3][3] -0.110 _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 0.934 _refine.correlation_coeff_Fo_to_Fc_free 0.913 _refine.pdbx_overall_ESU_R 0.318 _refine.pdbx_overall_ESU_R_Free 0.250 _refine.overall_SU_ML 0.175 _refine.overall_SU_B 13.938 _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_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_method_to_determine_struct MAD _refine.entry_id 2ETD _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_obs ? _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.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 0.7 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. THE STRUCTURE WAS NOT MODELED BETWEEN 162-171 BECAUSE THE ELECTRON DENSITY IN THIS REGION IS DISORDERED. 4. THIS PROTEIN IS REDUCTIVELY METHYLATED. HOWEVER, DENSITY FOR MOST OF THE METHYL GROUPS ARE NOT OBSERVED, MAYBE DUE TO FLEXIBILITY OR LIMITED RESOLUTION. ; _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_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _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 1106 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 62 _refine_hist.number_atoms_total 1169 _refine_hist.d_res_high 2.280 _refine_hist.d_res_low 26.70 # 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 1119 0.016 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 1023 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1505 1.362 1.968 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 2384 0.835 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 139 5.250 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 57 31.773 25.263 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 208 15.049 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 8 24.674 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 168 0.076 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1246 0.005 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 210 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 259 0.218 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 927 0.168 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 540 0.182 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 656 0.085 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 41 0.199 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 9 0.181 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 18 0.386 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 6 0.133 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 735 2.243 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 284 0.562 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1116 3.354 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 449 5.965 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 389 8.617 11.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.280 _refine_ls_shell.d_res_low 2.339 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 93.210 _refine_ls_shell.number_reflns_R_work 568 _refine_ls_shell.R_factor_R_work 0.24 _refine_ls_shell.R_factor_R_free 0.391 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 22 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2ETD _struct.title 'Crystal structure of a lema protein (tm0961) from thermotoga maritima msb8 at 2.28 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;Bromodomain-like fold, structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, membrane protein ; _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' _struct_keywords.entry_id 2ETD # 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 ? # _struct_biol.id 1 _struct_biol.details ;SIZE EXCLUSION CHROMATOGRAPHY WITH STATIC LIGHT SCATTERING SUPPORTS THE ASSIGNMENT OF A MONOMER AS A BIOLOGICALLY SIGNIFICANT OLIGIMERIZATION STATE. ; _struct_biol.pdbx_parent_biol_id ? # 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 HIS A 11 ? ALA A 49 ? HIS A -1 ALA A 71 1 ? 39 HELX_P HELX_P2 2 GLU A 52 ? ALA A 69 ? GLU A 74 ALA A 91 1 ? 18 HELX_P HELX_P3 3 THR A 71 ? GLU A 94 ? THR A 93 GLU A 116 1 ? 24 HELX_P HELX_P4 4 TYR A 96 ? ASP A 102 ? TYR A 118 ASP A 124 1 ? 7 HELX_P HELX_P5 5 ASP A 102 ? MLY A 138 ? ASP A 124 MLY A 160 1 ? 37 # _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 GLU 22 C ? ? ? 1_555 A MLY 23 N ? ? A GLU 44 A MLY 45 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale2 covale both ? A MLY 23 C ? ? ? 1_555 A TYR 24 N ? ? A MLY 45 A TYR 46 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale3 covale both ? A VAL 45 C ? ? ? 1_555 A MLY 46 N ? ? A VAL 67 A MLY 68 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale4 covale both ? A MLY 46 C ? ? ? 1_555 A GLY 47 N ? ? A MLY 68 A GLY 69 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale5 covale both ? A GLU 52 C ? ? ? 1_555 A MLY 53 N ? ? A GLU 74 A MLY 75 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale6 covale both ? A MLY 53 C ? ? ? 1_555 A GLU 54 N ? ? A MLY 75 A GLU 76 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale7 covale both ? A ALA 64 C ? ? ? 1_555 A MLY 65 N ? ? A ALA 86 A MLY 87 1_555 ? ? ? ? ? ? ? 1.340 ? ? covale8 covale both ? A MLY 65 C ? ? ? 1_555 A LEU 66 N ? ? A MLY 87 A LEU 88 1_555 ? ? ? ? ? ? ? 1.315 ? ? covale9 covale both ? A ALA 69 C ? ? ? 1_555 A MLY 70 N ? ? A ALA 91 A MLY 92 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale10 covale both ? A MLY 70 C ? ? ? 1_555 A THR 71 N ? ? A MLY 92 A THR 93 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale11 covale both ? A LEU 99 C ? ? ? 1_555 A MLY 100 N ? ? A LEU 121 A MLY 122 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale12 covale both ? A MLY 100 C ? ? ? 1_555 A ALA 101 N ? ? A MLY 122 A ALA 123 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale13 covale both ? A LEU 108 C ? ? ? 1_555 A MSE 109 N ? ? A LEU 130 A MSE 131 1_555 ? ? ? ? ? ? ? 1.349 ? ? covale14 covale both ? A MSE 109 C ? ? ? 1_555 A ASP 110 N ? ? A MSE 131 A ASP 132 1_555 ? ? ? ? ? ? ? 1.338 ? ? covale15 covale both ? A VAL 130 C ? ? ? 1_555 A MLY 131 N ? ? A VAL 152 A MLY 153 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale16 covale both ? A MLY 131 C ? ? ? 1_555 A MLY 132 N ? ? A MLY 153 A MLY 154 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale17 covale both ? A MLY 132 C ? ? ? 1_555 A TYR 133 N ? ? A MLY 154 A TYR 155 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale18 covale both ? A ILE 137 C ? ? ? 1_555 A MLY 138 N ? ? A ILE 159 A MLY 160 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale19 covale both ? A MLY 138 C ? ? ? 1_555 A MLY 139 N ? ? A MLY 160 A MLY 161 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale20 covale both ? A GLU 153 C ? ? ? 1_555 A MLY 154 N ? ? A GLU 175 A MLY 176 1_555 ? ? ? ? ? ? ? 1.317 ? ? covale21 covale both ? A MLY 154 C ? ? ? 1_555 A GLN 155 N ? ? A MLY 176 A GLN 177 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale22 covale both ? A ALA 159 C ? ? ? 1_555 A MLY 160 N ? ? A ALA 181 A MLY 182 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale23 covale both ? A MLY 160 C ? ? ? 1_555 A PRO 161 N ? ? A MLY 182 A PRO 183 1_555 ? ? ? ? ? ? ? 1.336 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id CL _struct_site.pdbx_auth_seq_id 1 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'BINDING SITE FOR RESIDUE CL A 1' # 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 2 ARG A 34 ? ARG A 56 . ? 1_555 ? 2 AC1 2 LEU A 86 ? LEU A 108 . ? 1_555 ? # _atom_sites.entry_id 2ETD _atom_sites.fract_transf_matrix[1][1] 0.01243 _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] 0.01173 _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] 0.01873 _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 MSE 1 -11 ? ? ? A . n A 1 2 GLY 2 -10 ? ? ? A . n A 1 3 SER 3 -9 ? ? ? A . n A 1 4 ASP 4 -8 ? ? ? A . n A 1 5 MLY 5 -7 ? ? ? A . n A 1 6 ILE 6 -6 ? ? ? A . n A 1 7 HIS 7 -5 ? ? ? A . n A 1 8 HIS 8 -4 ? ? ? A . n A 1 9 HIS 9 -3 ? ? ? A . n A 1 10 HIS 10 -2 ? ? ? A . n A 1 11 HIS 11 -1 -1 HIS HIS A . n A 1 12 HIS 12 0 0 HIS HIS A . n A 1 13 LEU 13 35 35 LEU LEU A . n A 1 14 VAL 14 36 36 VAL VAL A . n A 1 15 SER 15 37 37 SER SER A . n A 1 16 LEU 16 38 38 LEU LEU A . n A 1 17 GLU 17 39 39 GLU GLU A . n A 1 18 GLN 18 40 40 GLN GLN A . n A 1 19 GLU 19 41 41 GLU GLU A . n A 1 20 VAL 20 42 42 VAL VAL A . n A 1 21 GLN 21 43 43 GLN GLN A . n A 1 22 GLU 22 44 44 GLU GLU A . n A 1 23 MLY 23 45 45 MLY MLY A . n A 1 24 TYR 24 46 46 TYR TYR A . n A 1 25 SER 25 47 47 SER SER A . n A 1 26 GLN 26 48 48 GLN GLN A . n A 1 27 ILE 27 49 49 ILE ILE A . n A 1 28 GLN 28 50 50 GLN GLN A . n A 1 29 ASN 29 51 51 ASN ASN A . n A 1 30 GLN 30 52 52 GLN GLN A . n A 1 31 LEU 31 53 53 LEU LEU A . n A 1 32 GLN 32 54 54 GLN GLN A . n A 1 33 ARG 33 55 55 ARG ARG A . n A 1 34 ARG 34 56 56 ARG ARG A . n A 1 35 ALA 35 57 57 ALA ALA A . n A 1 36 ASP 36 58 58 ASP ASP A . n A 1 37 LEU 37 59 59 LEU LEU A . n A 1 38 ILE 38 60 60 ILE ILE A . n A 1 39 PRO 39 61 61 PRO PRO A . n A 1 40 ASN 40 62 62 ASN ASN A . n A 1 41 LEU 41 63 63 LEU LEU A . n A 1 42 VAL 42 64 64 VAL VAL A . n A 1 43 GLU 43 65 65 GLU GLU A . n A 1 44 THR 44 66 66 THR THR A . n A 1 45 VAL 45 67 67 VAL VAL A . n A 1 46 MLY 46 68 68 MLY MLY A . n A 1 47 GLY 47 69 69 GLY GLY A . n A 1 48 TYR 48 70 70 TYR TYR A . n A 1 49 ALA 49 71 71 ALA ALA A . n A 1 50 ALA 50 72 72 ALA ALA A . n A 1 51 HIS 51 73 73 HIS HIS A . n A 1 52 GLU 52 74 74 GLU GLU A . n A 1 53 MLY 53 75 75 MLY MLY A . n A 1 54 GLU 54 76 76 GLU GLU A . n A 1 55 ILE 55 77 77 ILE ILE A . n A 1 56 LEU 56 78 78 LEU LEU A . n A 1 57 GLU 57 79 79 GLU GLU A . n A 1 58 GLU 58 80 80 GLU GLU A . n A 1 59 ILE 59 81 81 ILE ILE A . n A 1 60 ALA 60 82 82 ALA ALA A . n A 1 61 ASN 61 83 83 ASN ASN A . n A 1 62 ALA 62 84 84 ALA ALA A . n A 1 63 ARG 63 85 85 ARG ARG A . n A 1 64 ALA 64 86 86 ALA ALA A . n A 1 65 MLY 65 87 87 MLY MLY A . n A 1 66 LEU 66 88 88 LEU LEU A . n A 1 67 ILE 67 89 89 ILE ILE A . n A 1 68 GLY 68 90 90 GLY GLY A . n A 1 69 ALA 69 91 91 ALA ALA A . n A 1 70 MLY 70 92 92 MLY MLY A . n A 1 71 THR 71 93 93 THR THR A . n A 1 72 PRO 72 94 94 PRO PRO A . n A 1 73 GLN 73 95 95 GLN GLN A . n A 1 74 GLU 74 96 96 GLU GLU A . n A 1 75 SER 75 97 97 SER SER A . n A 1 76 ALA 76 98 98 ALA ALA A . n A 1 77 GLN 77 99 99 GLN GLN A . n A 1 78 ALA 78 100 100 ALA ALA A . n A 1 79 ASP 79 101 101 ASP ASP A . n A 1 80 ALA 80 102 102 ALA ALA A . n A 1 81 GLU 81 103 103 GLU GLU A . n A 1 82 LEU 82 104 104 LEU LEU A . n A 1 83 SER 83 105 105 SER SER A . n A 1 84 SER 84 106 106 SER SER A . n A 1 85 ALA 85 107 107 ALA ALA A . n A 1 86 LEU 86 108 108 LEU LEU A . n A 1 87 SER 87 109 109 SER SER A . n A 1 88 ARG 88 110 110 ARG ARG A . n A 1 89 LEU 89 111 111 LEU LEU A . n A 1 90 LEU 90 112 112 LEU LEU A . n A 1 91 ALA 91 113 113 ALA ALA A . n A 1 92 ILE 92 114 114 ILE ILE A . n A 1 93 ALA 93 115 115 ALA ALA A . n A 1 94 GLU 94 116 116 GLU GLU A . n A 1 95 ASN 95 117 117 ASN ASN A . n A 1 96 TYR 96 118 118 TYR TYR A . n A 1 97 PRO 97 119 119 PRO PRO A . n A 1 98 ASN 98 120 120 ASN ASN A . n A 1 99 LEU 99 121 121 LEU LEU A . n A 1 100 MLY 100 122 122 MLY MLY A . n A 1 101 ALA 101 123 123 ALA ALA A . n A 1 102 ASP 102 124 124 ASP ASP A . n A 1 103 ALA 103 125 125 ALA ALA A . n A 1 104 ASN 104 126 126 ASN ASN A . n A 1 105 PHE 105 127 127 PHE PHE A . n A 1 106 ARG 106 128 128 ARG ARG A . n A 1 107 GLN 107 129 129 GLN GLN A . n A 1 108 LEU 108 130 130 LEU LEU A . n A 1 109 MSE 109 131 131 MSE MSE A . n A 1 110 ASP 110 132 132 ASP ASP A . n A 1 111 GLU 111 133 133 GLU GLU A . n A 1 112 LEU 112 134 134 LEU LEU A . n A 1 113 ALA 113 135 135 ALA ALA A . n A 1 114 GLY 114 136 136 GLY GLY A . n A 1 115 THR 115 137 137 THR THR A . n A 1 116 GLU 116 138 138 GLU GLU A . n A 1 117 ASN 117 139 139 ASN ASN A . n A 1 118 ARG 118 140 140 ARG ARG A . n A 1 119 ILE 119 141 141 ILE ILE A . n A 1 120 ALA 120 142 142 ALA ALA A . n A 1 121 VAL 121 143 143 VAL VAL A . n A 1 122 ALA 122 144 144 ALA ALA A . n A 1 123 ARG 123 145 145 ARG ARG A . n A 1 124 ARG 124 146 146 ARG ARG A . n A 1 125 ASP 125 147 147 ASP ASP A . n A 1 126 TYR 126 148 148 TYR TYR A . n A 1 127 ASN 127 149 149 ASN ASN A . n A 1 128 GLU 128 150 150 GLU GLU A . n A 1 129 ALA 129 151 151 ALA ALA A . n A 1 130 VAL 130 152 152 VAL VAL A . n A 1 131 MLY 131 153 153 MLY MLY A . n A 1 132 MLY 132 154 154 MLY MLY A . n A 1 133 TYR 133 155 155 TYR TYR A . n A 1 134 ASN 134 156 156 ASN ASN A . n A 1 135 THR 135 157 157 THR THR A . n A 1 136 ALA 136 158 158 ALA ALA A . n A 1 137 ILE 137 159 159 ILE ILE A . n A 1 138 MLY 138 160 160 MLY MLY A . n A 1 139 MLY 139 161 161 MLY MLY A . n A 1 140 PHE 140 162 ? ? ? A . n A 1 141 PRO 141 163 ? ? ? A . n A 1 142 GLY 142 164 ? ? ? A . n A 1 143 VAL 143 165 ? ? ? A . n A 1 144 ILE 144 166 ? ? ? A . n A 1 145 PHE 145 167 ? ? ? A . n A 1 146 ALA 146 168 ? ? ? A . n A 1 147 MLY 147 169 ? ? ? A . n A 1 148 MSE 148 170 ? ? ? A . n A 1 149 PHE 149 171 ? ? ? A . n A 1 150 GLY 150 172 172 GLY GLY A . n A 1 151 PHE 151 173 173 PHE PHE A . n A 1 152 GLU 152 174 174 GLU GLU A . n A 1 153 GLU 153 175 175 GLU GLU A . n A 1 154 MLY 154 176 176 MLY MLY A . n A 1 155 GLN 155 177 177 GLN GLN A . n A 1 156 TYR 156 178 178 TYR TYR A . n A 1 157 PHE 157 179 179 PHE PHE A . n A 1 158 GLU 158 180 180 GLU GLU A . n A 1 159 ALA 159 181 181 ALA ALA A . n A 1 160 MLY 160 182 182 MLY MLY A . n A 1 161 PRO 161 183 183 PRO PRO A . n A 1 162 GLY 162 184 ? ? ? A . n A 1 163 ALA 163 185 ? ? ? A . n A 1 164 GLU 164 186 ? ? ? A . n A 1 165 GLU 165 187 ? ? ? A . n A 1 166 VAL 166 188 ? ? ? A . n A 1 167 PRO 167 189 ? ? ? A . n A 1 168 GLU 168 190 ? ? ? A . n A 1 169 VAL 169 191 ? ? ? A . n A 1 170 MLY 170 192 ? ? ? A . n A 1 171 PHE 171 193 ? ? ? 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 1 1 CL CL A . C 3 HOH 1 194 2 HOH HOH A . C 3 HOH 2 195 3 HOH HOH A . C 3 HOH 3 196 4 HOH HOH A . C 3 HOH 4 197 5 HOH HOH A . C 3 HOH 5 198 6 HOH HOH A . C 3 HOH 6 199 7 HOH HOH A . C 3 HOH 7 200 8 HOH HOH A . C 3 HOH 8 201 9 HOH HOH A . C 3 HOH 9 202 10 HOH HOH A . C 3 HOH 10 203 11 HOH HOH A . C 3 HOH 11 204 12 HOH HOH A . C 3 HOH 12 205 13 HOH HOH A . C 3 HOH 13 206 14 HOH HOH A . C 3 HOH 14 207 15 HOH HOH A . C 3 HOH 15 208 16 HOH HOH A . C 3 HOH 16 209 17 HOH HOH A . C 3 HOH 17 210 18 HOH HOH A . C 3 HOH 18 211 19 HOH HOH A . C 3 HOH 19 212 20 HOH HOH A . C 3 HOH 20 213 21 HOH HOH A . C 3 HOH 21 214 22 HOH HOH A . C 3 HOH 22 215 23 HOH HOH A . C 3 HOH 23 216 24 HOH HOH A . C 3 HOH 24 217 25 HOH HOH A . C 3 HOH 25 218 26 HOH HOH A . C 3 HOH 26 219 27 HOH HOH A . C 3 HOH 27 220 28 HOH HOH A . C 3 HOH 28 221 29 HOH HOH A . C 3 HOH 29 222 30 HOH HOH A . C 3 HOH 30 223 31 HOH HOH A . C 3 HOH 31 224 32 HOH HOH A . C 3 HOH 32 225 33 HOH HOH A . C 3 HOH 33 226 34 HOH HOH A . C 3 HOH 34 227 35 HOH HOH A . C 3 HOH 35 228 36 HOH HOH A . C 3 HOH 36 229 37 HOH HOH A . C 3 HOH 37 230 38 HOH HOH A . C 3 HOH 38 231 39 HOH HOH A . C 3 HOH 39 232 40 HOH HOH A . C 3 HOH 40 233 41 HOH HOH A . C 3 HOH 41 234 42 HOH HOH A . C 3 HOH 42 235 43 HOH HOH A . C 3 HOH 43 236 44 HOH HOH A . C 3 HOH 44 237 45 HOH HOH A . C 3 HOH 45 238 46 HOH HOH A . C 3 HOH 46 239 47 HOH HOH A . C 3 HOH 47 240 48 HOH HOH A . C 3 HOH 48 241 49 HOH HOH A . C 3 HOH 49 242 50 HOH HOH A . C 3 HOH 50 243 51 HOH HOH A . C 3 HOH 51 244 52 HOH HOH A . C 3 HOH 52 245 53 HOH HOH A . C 3 HOH 53 246 54 HOH HOH A . C 3 HOH 54 247 55 HOH HOH A . C 3 HOH 55 248 56 HOH HOH A . C 3 HOH 56 249 57 HOH HOH A . C 3 HOH 57 250 58 HOH HOH A . C 3 HOH 58 251 59 HOH HOH A . C 3 HOH 59 252 60 HOH HOH A . C 3 HOH 60 253 61 HOH HOH A . C 3 HOH 61 254 62 HOH HOH A . C 3 HOH 62 255 63 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 MLY 23 A MLY 45 ? LYS N-DIMETHYL-LYSINE 2 A MLY 46 A MLY 68 ? LYS N-DIMETHYL-LYSINE 3 A MLY 53 A MLY 75 ? LYS N-DIMETHYL-LYSINE 4 A MLY 65 A MLY 87 ? LYS N-DIMETHYL-LYSINE 5 A MLY 70 A MLY 92 ? LYS N-DIMETHYL-LYSINE 6 A MLY 100 A MLY 122 ? LYS N-DIMETHYL-LYSINE 7 A MSE 109 A MSE 131 ? MET SELENOMETHIONINE 8 A MLY 131 A MLY 153 ? LYS N-DIMETHYL-LYSINE 9 A MLY 132 A MLY 154 ? LYS N-DIMETHYL-LYSINE 10 A MLY 138 A MLY 160 ? LYS N-DIMETHYL-LYSINE 11 A MLY 139 A MLY 161 ? LYS N-DIMETHYL-LYSINE 12 A MLY 154 A MLY 176 ? LYS N-DIMETHYL-LYSINE 13 A MLY 160 A MLY 182 ? LYS N-DIMETHYL-LYSINE # _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 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2005-11-15 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-25 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' Advisory 3 3 'Structure model' 'Source and taxonomy' 4 3 'Structure model' 'Version format compliance' 5 4 'Structure model' 'Author supporting evidence' 6 5 'Structure model' 'Database references' 7 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' pdbx_struct_assembly_auth_evidence 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 5 'Structure model' '_struct_ref_seq_dif.details' 5 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 14.1683 _pdbx_refine_tls.origin_y 28.8656 _pdbx_refine_tls.origin_z 53.6444 _pdbx_refine_tls.T[1][1] -0.1623 _pdbx_refine_tls.T[2][2] -0.2821 _pdbx_refine_tls.T[3][3] -0.1240 _pdbx_refine_tls.T[1][2] -0.0042 _pdbx_refine_tls.T[1][3] -0.0423 _pdbx_refine_tls.T[2][3] 0.0024 _pdbx_refine_tls.L[1][1] 3.4018 _pdbx_refine_tls.L[2][2] 1.0196 _pdbx_refine_tls.L[3][3] 6.6168 _pdbx_refine_tls.L[1][2] 0.1682 _pdbx_refine_tls.L[1][3] -2.1498 _pdbx_refine_tls.L[2][3] -0.8106 _pdbx_refine_tls.S[1][1] 0.0338 _pdbx_refine_tls.S[1][2] -0.0457 _pdbx_refine_tls.S[1][3] 0.2954 _pdbx_refine_tls.S[2][1] 0.0509 _pdbx_refine_tls.S[2][2] 0.0258 _pdbx_refine_tls.S[2][3] -0.0354 _pdbx_refine_tls.S[3][1] -0.3101 _pdbx_refine_tls.S[3][2] 0.1317 _pdbx_refine_tls.S[3][3] -0.0596 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' # _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id -1 _pdbx_refine_tls_group.beg_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id 11 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 183 _pdbx_refine_tls_group.end_label_asym_id A _pdbx_refine_tls_group.end_label_seq_id 161 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # _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 SCALEPACK . ? package 'Zbyszek Otwinowski' zbyszek@mix.swmed.edu 'data scaling' http://www.lnls.br/infra/linhasluz/denzo-hkl.htm ? ? 1 PDB_EXTRACT 1.601 'Jan. 30, 2005' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 2 DENZO . ? ? ? ? 'data reduction' ? ? ? 3 HKL-2000 . ? ? ? ? 'data scaling' ? ? ? 4 SHELX . ? ? ? ? phasing ? ? ? 5 SHARP . ? ? ? ? phasing ? ? ? 6 REFMAC 5.2.0005 ? ? ? ? refinement ? ? ? 7 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ALA _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 71 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -150.07 _pdbx_validate_torsion.psi 65.88 # 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 HIS -1 ? CG ? A HIS 11 CG 2 1 Y 1 A HIS -1 ? ND1 ? A HIS 11 ND1 3 1 Y 1 A HIS -1 ? CD2 ? A HIS 11 CD2 4 1 Y 1 A HIS -1 ? CE1 ? A HIS 11 CE1 5 1 Y 1 A HIS -1 ? NE2 ? A HIS 11 NE2 6 1 Y 1 A VAL 36 ? CG1 ? A VAL 14 CG1 7 1 Y 1 A VAL 36 ? CG2 ? A VAL 14 CG2 8 1 Y 1 A GLN 43 ? CD ? A GLN 21 CD 9 1 Y 1 A GLN 43 ? OE1 ? A GLN 21 OE1 10 1 Y 1 A GLN 43 ? NE2 ? A GLN 21 NE2 11 1 Y 1 A MLY 45 ? CH1 ? A MLY 23 CH1 12 1 Y 1 A MLY 45 ? CH2 ? A MLY 23 CH2 13 1 Y 1 A GLN 48 ? OE1 ? A GLN 26 OE1 14 1 Y 1 A GLU 65 ? CD ? A GLU 43 CD 15 1 Y 1 A GLU 65 ? OE1 ? A GLU 43 OE1 16 1 Y 1 A GLU 65 ? OE2 ? A GLU 43 OE2 17 1 Y 1 A MLY 68 ? CH1 ? A MLY 46 CH1 18 1 Y 1 A MLY 68 ? CH2 ? A MLY 46 CH2 19 1 Y 1 A MLY 75 ? CH1 ? A MLY 53 CH1 20 1 Y 1 A MLY 75 ? CH2 ? A MLY 53 CH2 21 1 Y 1 A GLU 76 ? OE1 ? A GLU 54 OE1 22 1 Y 1 A GLU 76 ? OE2 ? A GLU 54 OE2 23 1 Y 1 A MLY 87 ? CH1 ? A MLY 65 CH1 24 1 Y 1 A MLY 87 ? CH2 ? A MLY 65 CH2 25 1 Y 1 A MLY 92 ? CH1 ? A MLY 70 CH1 26 1 Y 1 A MLY 92 ? CH2 ? A MLY 70 CH2 27 1 Y 1 A MLY 122 ? CH1 ? A MLY 100 CH1 28 1 Y 1 A MLY 122 ? CH2 ? A MLY 100 CH2 29 1 Y 1 A MLY 153 ? CH1 ? A MLY 131 CH1 30 1 Y 1 A MLY 153 ? CH2 ? A MLY 131 CH2 31 1 Y 1 A MLY 154 ? CH1 ? A MLY 132 CH1 32 1 Y 1 A MLY 154 ? CH2 ? A MLY 132 CH2 33 1 Y 1 A MLY 160 ? CH1 ? A MLY 138 CH1 34 1 Y 1 A MLY 160 ? CH2 ? A MLY 138 CH2 35 1 Y 1 A MLY 161 ? CH1 ? A MLY 139 CH1 36 1 Y 1 A MLY 161 ? CH2 ? A MLY 139 CH2 37 1 Y 1 A MLY 176 ? CH1 ? A MLY 154 CH1 38 1 Y 1 A MLY 176 ? CH2 ? A MLY 154 CH2 39 1 Y 1 A MLY 182 ? CD ? A MLY 160 CD 40 1 Y 1 A MLY 182 ? CE ? A MLY 160 CE 41 1 Y 1 A MLY 182 ? NZ ? A MLY 160 NZ 42 1 Y 1 A MLY 182 ? CH1 ? A MLY 160 CH1 43 1 Y 1 A MLY 182 ? CH2 ? A MLY 160 CH2 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MSE -11 ? A MSE 1 2 1 Y 1 A GLY -10 ? A GLY 2 3 1 Y 1 A SER -9 ? A SER 3 4 1 Y 1 A ASP -8 ? A ASP 4 5 1 Y 1 A MLY -7 ? A MLY 5 6 1 Y 1 A ILE -6 ? A ILE 6 7 1 Y 1 A HIS -5 ? A HIS 7 8 1 Y 1 A HIS -4 ? A HIS 8 9 1 Y 1 A HIS -3 ? A HIS 9 10 1 Y 1 A HIS -2 ? A HIS 10 11 1 Y 1 A PHE 162 ? A PHE 140 12 1 Y 1 A PRO 163 ? A PRO 141 13 1 Y 1 A GLY 164 ? A GLY 142 14 1 Y 1 A VAL 165 ? A VAL 143 15 1 Y 1 A ILE 166 ? A ILE 144 16 1 Y 1 A PHE 167 ? A PHE 145 17 1 Y 1 A ALA 168 ? A ALA 146 18 1 Y 1 A MLY 169 ? A MLY 147 19 1 Y 1 A MSE 170 ? A MSE 148 20 1 Y 1 A PHE 171 ? A PHE 149 21 1 Y 1 A GLY 184 ? A GLY 162 22 1 Y 1 A ALA 185 ? A ALA 163 23 1 Y 1 A GLU 186 ? A GLU 164 24 1 Y 1 A GLU 187 ? A GLU 165 25 1 Y 1 A VAL 188 ? A VAL 166 26 1 Y 1 A PRO 189 ? A PRO 167 27 1 Y 1 A GLU 190 ? A GLU 168 28 1 Y 1 A VAL 191 ? A VAL 169 29 1 Y 1 A MLY 192 ? A MLY 170 30 1 Y 1 A PHE 193 ? A PHE 171 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 water HOH # loop_ _pdbx_struct_assembly_auth_evidence.id _pdbx_struct_assembly_auth_evidence.assembly_id _pdbx_struct_assembly_auth_evidence.experimental_support _pdbx_struct_assembly_auth_evidence.details 1 1 'gel filtration' ? 2 1 'light scattering' ? #