data_1O51 # _entry.id 1O51 # _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 1O51 pdb_00001o51 10.2210/pdb1o51/pdb RCSB RCSB001812 ? ? WWPDB D_1000001812 ? ? # _pdbx_database_PDB_obs_spr.id SPRSDE _pdbx_database_PDB_obs_spr.pdb_id 1O51 _pdbx_database_PDB_obs_spr.replace_pdb_id 1O2C _pdbx_database_PDB_obs_spr.date 2003-08-19 _pdbx_database_PDB_obs_spr.details ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 281902 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.entry_id 1O51 _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2003-08-01 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _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 a putative PII-like signaling protein (TM0021) from Thermotoga maritima at 2.5 A resolution' _citation.journal_abbrev Proteins _citation.journal_volume 54 _citation.page_first 810 _citation.page_last 813 _citation.year 2004 _citation.journal_id_ASTM PSFGEY _citation.country US _citation.journal_id_ISSN 0887-3585 _citation.journal_id_CSD 0867 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 14997579 _citation.pdbx_database_id_DOI 10.1002/prot.10647 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Schwarzenbacher, R.' 1 ? primary 'von Delft, F.' 2 ? primary 'Abdubek, P.' 3 ? primary 'Ambing, E.' 4 ? primary 'Biorac, T.' 5 ? primary 'Brinen, L.S.' 6 ? primary 'Canaves, J.M.' 7 ? primary 'Cambell, J.' 8 ? primary 'Chiu, H.J.' 9 ? primary 'Dai, X.' 10 ? primary 'Deacon, A.M.' 11 ? primary 'DiDonato, M.' 12 ? primary 'Elsliger, M.A.' 13 ? primary 'Eshagi, S.' 14 ? primary 'Floyd, R.' 15 ? primary 'Godzik, A.' 16 ? primary 'Grittini, C.' 17 ? primary 'Grzechnik, S.K.' 18 ? primary 'Hampton, E.' 19 ? primary 'Jaroszewski, L.' 20 ? primary 'Karlak, C.' 21 ? primary 'Klock, H.E.' 22 ? primary 'Koesema, E.' 23 ? primary 'Kovarik, J.S.' 24 ? primary 'Kreusch, A.' 25 ? primary 'Kuhn, P.' 26 ? primary 'Lesley, S.A.' 27 ? primary 'Levin, I.' 28 ? primary 'McMullan, D.' 29 ? primary 'McPhillips, T.M.' 30 ? primary 'Miller, M.D.' 31 ? primary 'Morse, A.' 32 ? primary 'Moy, K.' 33 ? primary 'Ouyang, J.' 34 ? primary 'Page, R.' 35 ? primary 'Quijano, K.' 36 ? primary 'Robb, A.' 37 ? primary 'Spraggon, G.' 38 ? primary 'Stevens, R.C.' 39 ? primary 'van den Bedem, H.' 40 ? primary 'Velasquez, J.' 41 ? primary 'Vincent, J.' 42 ? primary 'Wang, X.' 43 ? primary 'West, B.' 44 ? primary 'Wolf, G.' 45 ? primary 'Xu, Q.' 46 ? primary 'Hodgson, K.O.' 47 ? primary 'Wooley, J.' 48 ? primary 'Wilson, I.A.' 49 ? # _cell.entry_id 1O51 _cell.length_a 100.110 _cell.length_b 100.110 _cell.length_c 100.110 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 1O51 _symmetry.space_group_name_H-M 'P 43 3 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 212 _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 TM0021' 13425.157 1 ? ? ? ? 2 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 3 non-polymer syn "ADENOSINE-5'-DIPHOSPHATE" 427.201 1 ? ? ? ? 4 water nat water 18.015 39 ? ? ? ? # _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 ;MGSDKIHHHHHH(MSE)KLLKIYLGEKDKHSGKPLFEYLVKRAYELG(MSE)KGVTVYRGI(MSE)GFGHKRHMHRSDFF SLSPDLPIVLEIVDEEERINLFLKEIDNIDFDGLVFTADVNVVKMG ; _entity_poly.pdbx_seq_one_letter_code_can ;MGSDKIHHHHHHMKLLKIYLGEKDKHSGKPLFEYLVKRAYELGMKGVTVYRGIMGFGHKRHMHRSDFFSLSPDLPIVLEI VDEEERINLFLKEIDNIDFDGLVFTADVNVVKMG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 281902 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 GLY n 1 3 SER n 1 4 ASP n 1 5 LYS 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 MSE n 1 14 LYS n 1 15 LEU n 1 16 LEU n 1 17 LYS n 1 18 ILE n 1 19 TYR n 1 20 LEU n 1 21 GLY n 1 22 GLU n 1 23 LYS n 1 24 ASP n 1 25 LYS n 1 26 HIS n 1 27 SER n 1 28 GLY n 1 29 LYS n 1 30 PRO n 1 31 LEU n 1 32 PHE n 1 33 GLU n 1 34 TYR n 1 35 LEU n 1 36 VAL n 1 37 LYS n 1 38 ARG n 1 39 ALA n 1 40 TYR n 1 41 GLU n 1 42 LEU n 1 43 GLY n 1 44 MSE n 1 45 LYS n 1 46 GLY n 1 47 VAL n 1 48 THR n 1 49 VAL n 1 50 TYR n 1 51 ARG n 1 52 GLY n 1 53 ILE n 1 54 MSE n 1 55 GLY n 1 56 PHE n 1 57 GLY n 1 58 HIS n 1 59 LYS n 1 60 ARG n 1 61 HIS n 1 62 MET n 1 63 HIS n 1 64 ARG n 1 65 SER n 1 66 ASP n 1 67 PHE n 1 68 PHE n 1 69 SER n 1 70 LEU n 1 71 SER n 1 72 PRO n 1 73 ASP n 1 74 LEU n 1 75 PRO n 1 76 ILE n 1 77 VAL n 1 78 LEU n 1 79 GLU n 1 80 ILE n 1 81 VAL n 1 82 ASP n 1 83 GLU n 1 84 GLU n 1 85 GLU n 1 86 ARG n 1 87 ILE n 1 88 ASN n 1 89 LEU n 1 90 PHE n 1 91 LEU n 1 92 LYS n 1 93 GLU n 1 94 ILE n 1 95 ASP n 1 96 ASN n 1 97 ILE n 1 98 ASP n 1 99 PHE n 1 100 ASP n 1 101 GLY n 1 102 LEU n 1 103 VAL n 1 104 PHE n 1 105 THR n 1 106 ALA n 1 107 ASP n 1 108 VAL n 1 109 ASN n 1 110 VAL n 1 111 VAL n 1 112 LYS n 1 113 MET n 1 114 GLY 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 TM0021 _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 'Thermotoga maritima' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 2336 _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 Y021_THEMA _struct_ref.pdbx_db_accession Q9WXM9 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKLLKIYLGEKDKHSGKPLFEYLVKRAYELGMKGVTVYRGIMGFGHKRHMHRSDFFSLSPDLPIVLEIVDEEERINLFLK EIDNIDFDGLVFTADVNVVKMG ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1O51 _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 114 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9WXM9 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 102 _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 102 # 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 1O51 MET A 1 ? UNP Q9WXM9 ? ? 'expression tag' -11 1 1 1O51 GLY A 2 ? UNP Q9WXM9 ? ? 'expression tag' -10 2 1 1O51 SER A 3 ? UNP Q9WXM9 ? ? 'expression tag' -9 3 1 1O51 ASP A 4 ? UNP Q9WXM9 ? ? 'expression tag' -8 4 1 1O51 LYS A 5 ? UNP Q9WXM9 ? ? 'expression tag' -7 5 1 1O51 ILE A 6 ? UNP Q9WXM9 ? ? 'expression tag' -6 6 1 1O51 HIS A 7 ? UNP Q9WXM9 ? ? 'expression tag' -5 7 1 1O51 HIS A 8 ? UNP Q9WXM9 ? ? 'expression tag' -4 8 1 1O51 HIS A 9 ? UNP Q9WXM9 ? ? 'expression tag' -3 9 1 1O51 HIS A 10 ? UNP Q9WXM9 ? ? 'expression tag' -2 10 1 1O51 HIS A 11 ? UNP Q9WXM9 ? ? 'expression tag' -1 11 1 1O51 HIS A 12 ? UNP Q9WXM9 ? ? 'expression tag' 0 12 1 1O51 MSE A 13 ? UNP Q9WXM9 MET 1 'modified residue' 1 13 1 1O51 MSE A 44 ? UNP Q9WXM9 MET 32 'modified residue' 32 14 1 1O51 MSE A 54 ? UNP Q9WXM9 MET 42 'modified residue' 42 15 # 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 ADP non-polymer n "ADENOSINE-5'-DIPHOSPHATE" ? 'C10 H15 N5 O10 P2' 427.201 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 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 1O51 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.80 _exptl_crystal.density_percent_sol 67.37 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.60 _exptl_crystal_grow.pdbx_details ;2M ammonium sulfate, 0.1M tri-sodium citrate dihydrate pH 5.6, 0.2M potassium sodium tartrate tetrahydrate, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K, pH 5.60 ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type APS-1 _diffrn_detector.pdbx_collection_date 2002-10-27 _diffrn_detector.details 'WATER COOLED FOCUSING 2ND CRYSTAL, ROSENBAUM-ROCK VERTICAL FOCUSING MIRROR' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'ROSENBAUM-ROCK DOUBLE-CRYSTAL MONOCHROMATOR' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.97914 1.0 2 0.97934 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-BM' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-BM _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.97914, 0.97934' # _reflns.entry_id 1O51 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.000 _reflns.d_resolution_high 2.500 _reflns.number_obs 6359 _reflns.number_all ? _reflns.percent_possible_obs 100.0 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.109 _reflns.pdbx_netI_over_sigmaI 70.0500 _reflns.B_iso_Wilson_estimate 51.99 _reflns.pdbx_redundancy 43.830 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.50 _reflns_shell.d_res_low 2.59 _reflns_shell.percent_possible_all 100.0 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.588 _reflns_shell.meanI_over_sigI_obs 10.640 _reflns_shell.pdbx_redundancy 0.57 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1O51 _refine.ls_number_reflns_obs 5544 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 44.77 _refine.ls_d_res_high 2.50 _refine.ls_percent_reflns_obs 100.0 _refine.ls_R_factor_obs 0.19 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.184 _refine.ls_R_factor_R_free 0.229 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 12.400 _refine.ls_number_reflns_R_free 787 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.940 _refine.correlation_coeff_Fo_to_Fc_free 0.923 _refine.B_iso_mean 35.09 _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;1, PROMINENT DIFFERENCE DENSITY ON THE CRYSTALLOGRAPHIC (AND BIOLOGICAL) THREE-FOLD AXIS WAS INTERPRETED AS TWO SULFATE IONS, EVEN THOUGH BOTH ARE REFINED TO HIGH B-FACTORS.2, THERE IS WEAK AND AMBIGUOUS DENSITY INDICATING THE GENERAL LOCATION OF THE LAST RESIDUE OMITTED IN THE CHAIN BREAK, SER59A.3, HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ISOTROPIC _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.276 _refine.pdbx_overall_ESU_R_Free 0.226 _refine.overall_SU_ML 0.129 _refine.overall_SU_B 11.317 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_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 703 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 37 _refine_hist.number_atoms_solvent 39 _refine_hist.number_atoms_total 779 _refine_hist.d_res_high 2.50 _refine_hist.d_res_low 44.77 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.018 0.022 ? 761 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 698 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.784 2.026 ? 1033 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.873 3.000 ? 1613 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.913 5.000 ? 89 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 30.257 24.062 ? 32 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 17.152 15.000 ? 129 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 25.487 15.000 ? 3 'X-RAY DIFFRACTION' ? r_chiral_restr 0.092 0.200 ? 115 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.020 ? 799 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 150 'X-RAY DIFFRACTION' ? r_nbd_refined 0.241 0.200 ? 113 'X-RAY DIFFRACTION' ? r_nbd_other 0.190 0.200 ? 633 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other 0.091 0.200 ? 506 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.200 0.200 ? 24 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.178 0.200 ? 14 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.222 0.200 ? 41 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.171 0.200 ? 20 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.858 1.500 ? 441 'X-RAY DIFFRACTION' ? r_mcangle_it 1.685 2.000 ? 708 'X-RAY DIFFRACTION' ? r_scbond_it 2.586 3.000 ? 320 'X-RAY DIFFRACTION' ? r_scangle_it 4.231 4.500 ? 324 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.50 _refine_ls_shell.d_res_low 2.57 _refine_ls_shell.number_reflns_R_work 371 _refine_ls_shell.R_factor_R_work 0.171 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.247 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 76 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 1O51 _struct.title 'Crystal structure of a putative PII-like signaling protein (TM0021) from Thermotoga maritima at 2.50 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;Ferredoxin-like fold, structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI, signaling protein ; _struct_keywords.pdbx_keywords 'SIGNALING PROTEIN' _struct_keywords.entry_id 1O51 # 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 2 ? D N N 3 ? E 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 LEU A 31 ? LEU A 42 ? LEU A 19 LEU A 30 1 ? 12 HELX_P HELX_P2 2 GLU A 83 ? ASN A 96 ? GLU A 71 ASN A 84 1 ? 14 # _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 HIS 12 C ? ? ? 1_555 A MSE 13 N ? ? A HIS 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale2 covale both ? A MSE 13 C ? ? ? 1_555 A LYS 14 N ? ? A MSE 1 A LYS 2 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale3 covale both ? A GLY 43 C ? ? ? 1_555 A MSE 44 N ? ? A GLY 31 A MSE 32 1_555 ? ? ? ? ? ? ? 1.343 ? ? covale4 covale both ? A MSE 44 C ? ? ? 1_555 A LYS 45 N ? ? A MSE 32 A LYS 33 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale5 covale both ? A ILE 53 C ? ? ? 1_555 A MSE 54 N ? ? A ILE 41 A MSE 42 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale6 covale both ? A MSE 54 C ? ? ? 1_555 A GLY 55 N ? ? A MSE 42 A GLY 43 1_555 ? ? ? ? ? ? ? 1.320 ? ? # _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 ? 4 ? B ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel # 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 48 ? ARG A 51 ? THR A 36 ARG A 39 A 2 PRO A 75 ? ASP A 82 ? PRO A 63 ASP A 70 A 3 HIS A 12 ? GLY A 21 ? HIS A 0 GLY A 9 A 4 LEU A 102 ? ASN A 109 ? LEU A 90 ASN A 97 B 1 LYS A 25 ? HIS A 26 ? LYS A 13 HIS A 14 B 2 LYS A 29 ? PRO A 30 ? LYS A 17 PRO A 18 # 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 TYR A 50 ? N TYR A 38 O VAL A 77 ? O VAL A 65 A 2 3 O ILE A 80 ? O ILE A 68 N LEU A 16 ? N LEU A 4 A 3 4 N LYS A 17 ? N LYS A 5 O PHE A 104 ? O PHE A 92 B 1 2 N HIS A 26 ? N HIS A 14 O LYS A 29 ? O LYS A 17 # 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 SO4 301 ? 11 'BINDING SITE FOR RESIDUE SO4 A 301' AC2 Software A SO4 302 ? 14 'BINDING SITE FOR RESIDUE SO4 A 302' AC3 Software A ADP 200 ? 18 'BINDING SITE FOR RESIDUE ADP A 200' # 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 11 LYS A 17 ? LYS A 5 . ? 6_555 ? 2 AC1 11 LYS A 17 ? LYS A 5 . ? 1_555 ? 3 AC1 11 LYS A 17 ? LYS A 5 . ? 12_554 ? 4 AC1 11 TYR A 50 ? TYR A 38 . ? 1_555 ? 5 AC1 11 TYR A 50 ? TYR A 38 . ? 12_554 ? 6 AC1 11 GLU A 79 ? GLU A 67 . ? 12_554 ? 7 AC1 11 GLU A 79 ? GLU A 67 . ? 6_555 ? 8 AC1 11 GLU A 79 ? GLU A 67 . ? 1_555 ? 9 AC1 11 SO4 C . ? SO4 A 302 . ? 6_555 ? 10 AC1 11 SO4 C . ? SO4 A 302 . ? 12_554 ? 11 AC1 11 SO4 C . ? SO4 A 302 . ? 1_555 ? 12 AC2 14 LEU A 15 ? LEU A 3 . ? 12_554 ? 13 AC2 14 LEU A 15 ? LEU A 3 . ? 6_555 ? 14 AC2 14 LYS A 17 ? LYS A 5 . ? 1_555 ? 15 AC2 14 LYS A 17 ? LYS A 5 . ? 12_554 ? 16 AC2 14 LYS A 17 ? LYS A 5 . ? 6_555 ? 17 AC2 14 GLU A 79 ? GLU A 67 . ? 6_555 ? 18 AC2 14 GLU A 79 ? GLU A 67 . ? 12_554 ? 19 AC2 14 PHE A 104 ? PHE A 92 . ? 12_554 ? 20 AC2 14 SO4 B . ? SO4 A 301 . ? 12_554 ? 21 AC2 14 SO4 B . ? SO4 A 301 . ? 6_555 ? 22 AC2 14 SO4 B . ? SO4 A 301 . ? 1_555 ? 23 AC2 14 HOH E . ? HOH A 341 . ? 6_555 ? 24 AC2 14 HOH E . ? HOH A 341 . ? 1_555 ? 25 AC2 14 HOH E . ? HOH A 341 . ? 12_554 ? 26 AC3 18 TYR A 19 ? TYR A 7 . ? 1_555 ? 27 AC3 18 GLY A 46 ? GLY A 34 . ? 12_554 ? 28 AC3 18 VAL A 47 ? VAL A 35 . ? 12_554 ? 29 AC3 18 THR A 48 ? THR A 36 . ? 12_554 ? 30 AC3 18 GLY A 55 ? GLY A 43 . ? 1_555 ? 31 AC3 18 PHE A 56 ? PHE A 44 . ? 1_555 ? 32 AC3 18 GLY A 57 ? GLY A 45 . ? 1_555 ? 33 AC3 18 HIS A 58 ? HIS A 46 . ? 1_555 ? 34 AC3 18 PRO A 75 ? PRO A 63 . ? 1_555 ? 35 AC3 18 GLU A 79 ? GLU A 67 . ? 12_554 ? 36 AC3 18 VAL A 81 ? VAL A 69 . ? 12_554 ? 37 AC3 18 ASP A 100 ? ASP A 88 . ? 1_555 ? 38 AC3 18 GLY A 101 ? GLY A 89 . ? 1_555 ? 39 AC3 18 HOH E . ? HOH A 311 . ? 12_554 ? 40 AC3 18 HOH E . ? HOH A 319 . ? 1_555 ? 41 AC3 18 HOH E . ? HOH A 336 . ? 1_555 ? 42 AC3 18 HOH E . ? HOH A 337 . ? 1_555 ? 43 AC3 18 HOH E . ? HOH A 339 . ? 1_555 ? # _atom_sites.entry_id 1O51 _atom_sites.fract_transf_matrix[1][1] 0.009989 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.009989 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.009989 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MET 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 LYS 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 MSE 13 1 1 MSE MSE A . n A 1 14 LYS 14 2 2 LYS LYS A . n A 1 15 LEU 15 3 3 LEU LEU A . n A 1 16 LEU 16 4 4 LEU LEU A . n A 1 17 LYS 17 5 5 LYS LYS A . n A 1 18 ILE 18 6 6 ILE ILE A . n A 1 19 TYR 19 7 7 TYR TYR A . n A 1 20 LEU 20 8 8 LEU LEU A . n A 1 21 GLY 21 9 9 GLY GLY A . n A 1 22 GLU 22 10 10 GLU GLU A . n A 1 23 LYS 23 11 11 LYS LYS A . n A 1 24 ASP 24 12 12 ASP ASP A . n A 1 25 LYS 25 13 13 LYS LYS A . n A 1 26 HIS 26 14 14 HIS HIS A . n A 1 27 SER 27 15 15 SER SER A . n A 1 28 GLY 28 16 16 GLY GLY A . n A 1 29 LYS 29 17 17 LYS LYS A . n A 1 30 PRO 30 18 18 PRO PRO A . n A 1 31 LEU 31 19 19 LEU LEU A . n A 1 32 PHE 32 20 20 PHE PHE A . n A 1 33 GLU 33 21 21 GLU GLU A . n A 1 34 TYR 34 22 22 TYR TYR A . n A 1 35 LEU 35 23 23 LEU LEU A . n A 1 36 VAL 36 24 24 VAL VAL A . n A 1 37 LYS 37 25 25 LYS LYS A . n A 1 38 ARG 38 26 26 ARG ARG A . n A 1 39 ALA 39 27 27 ALA ALA A . n A 1 40 TYR 40 28 28 TYR TYR A . n A 1 41 GLU 41 29 29 GLU GLU A . n A 1 42 LEU 42 30 30 LEU LEU A . n A 1 43 GLY 43 31 31 GLY GLY A . n A 1 44 MSE 44 32 32 MSE MSE A . n A 1 45 LYS 45 33 33 LYS LYS A . n A 1 46 GLY 46 34 34 GLY GLY A . n A 1 47 VAL 47 35 35 VAL VAL A . n A 1 48 THR 48 36 36 THR THR A . n A 1 49 VAL 49 37 37 VAL VAL A . n A 1 50 TYR 50 38 38 TYR TYR A . n A 1 51 ARG 51 39 39 ARG ARG A . n A 1 52 GLY 52 40 40 GLY GLY A . n A 1 53 ILE 53 41 41 ILE ILE A . n A 1 54 MSE 54 42 42 MSE MSE A . n A 1 55 GLY 55 43 43 GLY GLY A . n A 1 56 PHE 56 44 44 PHE PHE A . n A 1 57 GLY 57 45 45 GLY GLY A . n A 1 58 HIS 58 46 46 HIS HIS A . n A 1 59 LYS 59 47 ? ? ? A . n A 1 60 ARG 60 48 ? ? ? A . n A 1 61 HIS 61 49 ? ? ? A . n A 1 62 MET 62 50 ? ? ? A . n A 1 63 HIS 63 51 ? ? ? A . n A 1 64 ARG 64 52 ? ? ? A . n A 1 65 SER 65 53 ? ? ? A . n A 1 66 ASP 66 54 ? ? ? A . n A 1 67 PHE 67 55 ? ? ? A . n A 1 68 PHE 68 56 ? ? ? A . n A 1 69 SER 69 57 ? ? ? A . n A 1 70 LEU 70 58 ? ? ? A . n A 1 71 SER 71 59 ? ? ? A . n A 1 72 PRO 72 60 60 PRO PRO A . n A 1 73 ASP 73 61 61 ASP ASP A . n A 1 74 LEU 74 62 62 LEU LEU A . n A 1 75 PRO 75 63 63 PRO PRO A . n A 1 76 ILE 76 64 64 ILE ILE A . n A 1 77 VAL 77 65 65 VAL VAL A . n A 1 78 LEU 78 66 66 LEU LEU A . n A 1 79 GLU 79 67 67 GLU GLU A . n A 1 80 ILE 80 68 68 ILE ILE A . n A 1 81 VAL 81 69 69 VAL VAL A . n A 1 82 ASP 82 70 70 ASP ASP A . n A 1 83 GLU 83 71 71 GLU GLU A . n A 1 84 GLU 84 72 72 GLU GLU A . n A 1 85 GLU 85 73 73 GLU GLU A . n A 1 86 ARG 86 74 74 ARG ARG A . n A 1 87 ILE 87 75 75 ILE ILE A . n A 1 88 ASN 88 76 76 ASN ASN A . n A 1 89 LEU 89 77 77 LEU LEU A . n A 1 90 PHE 90 78 78 PHE PHE A . n A 1 91 LEU 91 79 79 LEU LEU A . n A 1 92 LYS 92 80 80 LYS LYS A . n A 1 93 GLU 93 81 81 GLU GLU A . n A 1 94 ILE 94 82 82 ILE ILE A . n A 1 95 ASP 95 83 83 ASP ASP A . n A 1 96 ASN 96 84 84 ASN ASN A . n A 1 97 ILE 97 85 85 ILE ILE A . n A 1 98 ASP 98 86 86 ASP ASP A . n A 1 99 PHE 99 87 87 PHE PHE A . n A 1 100 ASP 100 88 88 ASP ASP A . n A 1 101 GLY 101 89 89 GLY GLY A . n A 1 102 LEU 102 90 90 LEU LEU A . n A 1 103 VAL 103 91 91 VAL VAL A . n A 1 104 PHE 104 92 92 PHE PHE A . n A 1 105 THR 105 93 93 THR THR A . n A 1 106 ALA 106 94 94 ALA ALA A . n A 1 107 ASP 107 95 95 ASP ASP A . n A 1 108 VAL 108 96 96 VAL VAL A . n A 1 109 ASN 109 97 97 ASN ASN A . n A 1 110 VAL 110 98 98 VAL VAL A . n A 1 111 VAL 111 99 99 VAL VAL A . n A 1 112 LYS 112 100 100 LYS LYS A . n A 1 113 MET 113 101 ? ? ? A . n A 1 114 GLY 114 102 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _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 SO4 1 301 301 SO4 SO4 A . C 2 SO4 1 302 302 SO4 SO4 A . D 3 ADP 1 200 200 ADP ADP A . E 4 HOH 1 303 1 HOH HOH A . E 4 HOH 2 304 2 HOH HOH A . E 4 HOH 3 305 3 HOH HOH A . E 4 HOH 4 306 4 HOH HOH A . E 4 HOH 5 307 5 HOH HOH A . E 4 HOH 6 308 6 HOH HOH A . E 4 HOH 7 309 7 HOH HOH A . E 4 HOH 8 310 8 HOH HOH A . E 4 HOH 9 311 9 HOH HOH A . E 4 HOH 10 312 10 HOH HOH A . E 4 HOH 11 313 11 HOH HOH A . E 4 HOH 12 314 12 HOH HOH A . E 4 HOH 13 315 13 HOH HOH A . E 4 HOH 14 316 16 HOH HOH A . E 4 HOH 15 317 18 HOH HOH A . E 4 HOH 16 318 19 HOH HOH A . E 4 HOH 17 319 20 HOH HOH A . E 4 HOH 18 320 21 HOH HOH A . E 4 HOH 19 321 22 HOH HOH A . E 4 HOH 20 322 24 HOH HOH A . E 4 HOH 21 323 25 HOH HOH A . E 4 HOH 22 324 29 HOH HOH A . E 4 HOH 23 325 31 HOH HOH A . E 4 HOH 24 326 34 HOH HOH A . E 4 HOH 25 327 36 HOH HOH A . E 4 HOH 26 328 37 HOH HOH A . E 4 HOH 27 329 38 HOH HOH A . E 4 HOH 28 330 39 HOH HOH A . E 4 HOH 29 331 40 HOH HOH A . E 4 HOH 30 332 41 HOH HOH A . E 4 HOH 31 333 42 HOH HOH A . E 4 HOH 32 334 43 HOH HOH A . E 4 HOH 33 335 44 HOH HOH A . E 4 HOH 34 336 46 HOH HOH A . E 4 HOH 35 337 47 HOH HOH A . E 4 HOH 36 338 48 HOH HOH A . E 4 HOH 37 339 49 HOH HOH A . E 4 HOH 38 340 50 HOH HOH A . E 4 HOH 39 341 52 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 13 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 44 A MSE 32 ? MET SELENOMETHIONINE 3 A MSE 54 A MSE 42 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 8630 ? 1 MORE -187 ? 1 'SSA (A^2)' 12380 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 6_555 z+1/2,-x+1/2,-y 0.0000000000 0.0000000000 1.0000000000 50.0550000000 -1.0000000000 0.0000000000 0.0000000000 50.0550000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 3 'crystal symmetry operation' 12_554 -y+1/2,-z,x-1/2 0.0000000000 -1.0000000000 0.0000000000 50.0550000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 -50.0550000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A SO4 302 ? C SO4 . 2 1 A HOH 304 ? E HOH . 3 1 A HOH 328 ? E HOH . # 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 2003-08-19 2 'Structure model' 1 1 2008-04-26 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2018-07-18 6 'Structure model' 1 5 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' 'Derived calculations' 4 3 'Structure model' 'Version format compliance' 5 4 'Structure model' 'Refinement description' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Database references' 8 5 'Structure model' 'Derived calculations' 9 6 'Structure model' 'Database references' 10 6 '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' pdbx_database_related 3 5 'Structure model' pdbx_struct_special_symmetry 4 6 'Structure model' database_2 5 6 'Structure model' struct_conn 6 6 'Structure model' struct_ref_seq_dif 7 6 '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.name' 2 6 'Structure model' '_database_2.pdbx_DOI' 3 6 'Structure model' '_database_2.pdbx_database_accession' 4 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 6 'Structure model' '_struct_ref_seq_dif.details' 6 6 'Structure model' '_struct_site.pdbx_auth_asym_id' 7 6 'Structure model' '_struct_site.pdbx_auth_comp_id' 8 6 '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 48.2120 _pdbx_refine_tls.origin_y 12.3870 _pdbx_refine_tls.origin_z 4.3480 _pdbx_refine_tls.T[1][1] -0.0264 _pdbx_refine_tls.T[2][2] -0.2146 _pdbx_refine_tls.T[3][3] -0.1646 _pdbx_refine_tls.T[1][2] -0.0201 _pdbx_refine_tls.T[1][3] 0.0034 _pdbx_refine_tls.T[2][3] -0.0658 _pdbx_refine_tls.L[1][1] 5.7424 _pdbx_refine_tls.L[2][2] 3.7382 _pdbx_refine_tls.L[3][3] 4.8187 _pdbx_refine_tls.L[1][2] -0.0523 _pdbx_refine_tls.L[1][3] 2.4899 _pdbx_refine_tls.L[2][3] -1.3634 _pdbx_refine_tls.S[1][1] -0.2259 _pdbx_refine_tls.S[1][2] -0.3676 _pdbx_refine_tls.S[1][3] 0.4388 _pdbx_refine_tls.S[2][1] 0.5771 _pdbx_refine_tls.S[2][2] 0.0022 _pdbx_refine_tls.S[2][3] 0.1537 _pdbx_refine_tls.S[3][1] -0.7102 _pdbx_refine_tls.S[3][2] -0.1453 _pdbx_refine_tls.S[3][3] 0.2237 _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_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id 11 _pdbx_refine_tls_group.beg_auth_seq_id -1 _pdbx_refine_tls_group.end_label_asym_id A _pdbx_refine_tls_group.end_label_seq_id 112 _pdbx_refine_tls_group.end_auth_seq_id 100 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal DENZO 'data reduction' . ? 1 SCALEPACK 'data scaling' . ? 2 RESOLVE 'model building' . ? 3 SOLVE phasing . ? 4 REFMAC refinement 5.1.9999 ? 5 RESOLVE phasing . ? 6 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ASP _pdbx_validate_rmsd_angle.auth_seq_id_1 12 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CG _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ASP _pdbx_validate_rmsd_angle.auth_seq_id_2 12 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 OD2 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ASP _pdbx_validate_rmsd_angle.auth_seq_id_3 12 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 126.01 _pdbx_validate_rmsd_angle.angle_target_value 118.30 _pdbx_validate_rmsd_angle.angle_deviation 7.71 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.90 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASP _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 88 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -88.09 _pdbx_validate_torsion.psi -100.19 # 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 11 ? CE ? A LYS 23 CE 2 1 Y 1 A LYS 11 ? NZ ? A LYS 23 NZ 3 1 Y 1 A LYS 17 ? NZ ? A LYS 29 NZ 4 1 Y 1 A LYS 25 ? CE ? A LYS 37 CE 5 1 Y 1 A LYS 25 ? NZ ? A LYS 37 NZ 6 1 Y 1 A MSE 32 ? CG ? A MSE 44 CG 7 1 Y 1 A MSE 32 ? SE ? A MSE 44 SE 8 1 Y 1 A MSE 32 ? CE ? A MSE 44 CE 9 1 Y 1 A LYS 80 ? CD ? A LYS 92 CD 10 1 Y 1 A LYS 80 ? CE ? A LYS 92 CE 11 1 Y 1 A LYS 80 ? NZ ? A LYS 92 NZ 12 1 Y 1 A ASN 84 ? CG ? A ASN 96 CG 13 1 Y 1 A ASN 84 ? OD1 ? A ASN 96 OD1 14 1 Y 1 A ASN 84 ? ND2 ? A ASN 96 ND2 15 1 Y 1 A ASP 86 ? CG ? A ASP 98 CG 16 1 Y 1 A ASP 86 ? OD1 ? A ASP 98 OD1 17 1 Y 1 A ASP 86 ? OD2 ? A ASP 98 OD2 18 1 Y 1 A ASP 88 ? CG ? A ASP 100 CG 19 1 Y 1 A ASP 88 ? OD1 ? A ASP 100 OD1 20 1 Y 1 A ASP 88 ? OD2 ? A ASP 100 OD2 # 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 MET -11 ? A MET 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 LYS -7 ? A LYS 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 LYS 47 ? A LYS 59 12 1 Y 1 A ARG 48 ? A ARG 60 13 1 Y 1 A HIS 49 ? A HIS 61 14 1 Y 1 A MET 50 ? A MET 62 15 1 Y 1 A HIS 51 ? A HIS 63 16 1 Y 1 A ARG 52 ? A ARG 64 17 1 Y 1 A SER 53 ? A SER 65 18 1 Y 1 A ASP 54 ? A ASP 66 19 1 Y 1 A PHE 55 ? A PHE 67 20 1 Y 1 A PHE 56 ? A PHE 68 21 1 Y 1 A SER 57 ? A SER 69 22 1 Y 1 A LEU 58 ? A LEU 70 23 1 Y 1 A SER 59 ? A SER 71 24 1 Y 1 A MET 101 ? A MET 113 25 1 Y 1 A GLY 102 ? A GLY 114 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SULFATE ION' SO4 3 "ADENOSINE-5'-DIPHOSPHATE" ADP 4 water HOH #