data_2RKH # _entry.id 2RKH # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.313 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2RKH RCSB RCSB044969 WWPDB D_1000044969 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 377966 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 2RKH _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-10-16 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title ;Crystal structure of a putative AphA-like transcription factor (ZP_00208345.1) from Magnetospirillum magnetotacticum MS-1 at 2.00 A resolution ; _citation.journal_abbrev 'To be published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # _citation_author.citation_id primary _citation_author.name 'Joint Center for Structural Genomics (JCSG)' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _cell.entry_id 2RKH _cell.length_a 66.620 _cell.length_b 66.620 _cell.length_c 92.600 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 2RKH _symmetry.Int_Tables_number 96 _symmetry.space_group_name_H-M 'P 43 21 2' _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 'Putative AphA-like transcription factor' 20110.652 1 ? ? ? ? 2 water nat water 18.015 57 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;G(MSE)FADNTLTPKEAVRLCALGTIASQP(MSE)RYSELAGSVRHFTSRI(MSE)GPSLEL(MSE)GISIELLRYEGLV EAVDDGQG(MSE)EDDA(MSE)LAISAAGRRELHSLLTARLRPGSDLSKLVVALK(MSE)RFLGL(MSE)EAEERAHQID LLIEGVDSELARLADLRGSDGEGGSALAAWLDHD(MSE)ALLESRLAWLEDFRARL ; _entity_poly.pdbx_seq_one_letter_code_can ;GMFADNTLTPKEAVRLCALGTIASQPMRYSELAGSVRHFTSRIMGPSLELMGISIELLRYEGLVEAVDDGQGMEDDAMLA ISAAGRRELHSLLTARLRPGSDLSKLVVALKMRFLGLMEAEERAHQIDLLIEGVDSELARLADLRGSDGEGGSALAAWLD HDMALLESRLAWLEDFRARL ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 377966 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 MSE n 1 3 PHE n 1 4 ALA n 1 5 ASP n 1 6 ASN n 1 7 THR n 1 8 LEU n 1 9 THR n 1 10 PRO n 1 11 LYS n 1 12 GLU n 1 13 ALA n 1 14 VAL n 1 15 ARG n 1 16 LEU n 1 17 CYS n 1 18 ALA n 1 19 LEU n 1 20 GLY n 1 21 THR n 1 22 ILE n 1 23 ALA n 1 24 SER n 1 25 GLN n 1 26 PRO n 1 27 MSE n 1 28 ARG n 1 29 TYR n 1 30 SER n 1 31 GLU n 1 32 LEU n 1 33 ALA n 1 34 GLY n 1 35 SER n 1 36 VAL n 1 37 ARG n 1 38 HIS n 1 39 PHE n 1 40 THR n 1 41 SER n 1 42 ARG n 1 43 ILE n 1 44 MSE n 1 45 GLY n 1 46 PRO n 1 47 SER n 1 48 LEU n 1 49 GLU n 1 50 LEU n 1 51 MSE n 1 52 GLY n 1 53 ILE n 1 54 SER n 1 55 ILE n 1 56 GLU n 1 57 LEU n 1 58 LEU n 1 59 ARG n 1 60 TYR n 1 61 GLU n 1 62 GLY n 1 63 LEU n 1 64 VAL n 1 65 GLU n 1 66 ALA n 1 67 VAL n 1 68 ASP n 1 69 ASP n 1 70 GLY n 1 71 GLN n 1 72 GLY n 1 73 MSE n 1 74 GLU n 1 75 ASP n 1 76 ASP n 1 77 ALA n 1 78 MSE n 1 79 LEU n 1 80 ALA n 1 81 ILE n 1 82 SER n 1 83 ALA n 1 84 ALA n 1 85 GLY n 1 86 ARG n 1 87 ARG n 1 88 GLU n 1 89 LEU n 1 90 HIS n 1 91 SER n 1 92 LEU n 1 93 LEU n 1 94 THR n 1 95 ALA n 1 96 ARG n 1 97 LEU n 1 98 ARG n 1 99 PRO n 1 100 GLY n 1 101 SER n 1 102 ASP n 1 103 LEU n 1 104 SER n 1 105 LYS n 1 106 LEU n 1 107 VAL n 1 108 VAL n 1 109 ALA n 1 110 LEU n 1 111 LYS n 1 112 MSE n 1 113 ARG n 1 114 PHE n 1 115 LEU n 1 116 GLY n 1 117 LEU n 1 118 MSE n 1 119 GLU n 1 120 ALA n 1 121 GLU n 1 122 GLU n 1 123 ARG n 1 124 ALA n 1 125 HIS n 1 126 GLN n 1 127 ILE n 1 128 ASP n 1 129 LEU n 1 130 LEU n 1 131 ILE n 1 132 GLU n 1 133 GLY n 1 134 VAL n 1 135 ASP n 1 136 SER n 1 137 GLU n 1 138 LEU n 1 139 ALA n 1 140 ARG n 1 141 LEU n 1 142 ALA n 1 143 ASP n 1 144 LEU n 1 145 ARG n 1 146 GLY n 1 147 SER n 1 148 ASP n 1 149 GLY n 1 150 GLU n 1 151 GLY n 1 152 GLY n 1 153 SER n 1 154 ALA n 1 155 LEU n 1 156 ALA n 1 157 ALA n 1 158 TRP n 1 159 LEU n 1 160 ASP n 1 161 HIS n 1 162 ASP n 1 163 MSE n 1 164 ALA n 1 165 LEU n 1 166 LEU n 1 167 GLU n 1 168 SER n 1 169 ARG n 1 170 LEU n 1 171 ALA n 1 172 TRP n 1 173 LEU n 1 174 GLU n 1 175 ASP n 1 176 PHE n 1 177 ARG n 1 178 ALA n 1 179 ARG n 1 180 LEU 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 Magnetospirillum _entity_src_gen.pdbx_gene_src_gene ZP_00208345.1 _entity_src_gen.gene_src_species 'Magnetospirillum magnetotacticum' _entity_src_gen.gene_src_strain MS-1 _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 'Magnetospirillum magnetotacticum' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 272627 _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 HK100 _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type Plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name speedET _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2RKH _struct_ref.pdbx_db_accession 2RKH _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2RKH _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 180 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2RKH _struct_ref_seq.db_align_beg 0 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 179 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 0 _struct_ref_seq.pdbx_auth_seq_align_end 179 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 2RKH # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.55 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 51.85 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details 'NANODROP, 15.0% Glycerol, 0.17M NaOAc, 25.5% PEG 4000, 0.1M Tris-HCl pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.details ? _diffrn_detector.pdbx_collection_date 2007-09-15 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Double crystal Si(111)' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.0000 1.0 2 0.9795 1.0 3 0.9797 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.pdbx_wavelength_list '1.0000, 0.9795, 0.9797' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ALS # _reflns.entry_id 2RKH _reflns.d_resolution_high 2.00 _reflns.d_resolution_low 28.364 _reflns.number_obs 14688 _reflns.pdbx_Rmerge_I_obs 0.046 _reflns.pdbx_netI_over_sigmaI 16.260 _reflns.percent_possible_obs 99.700 _reflns.B_iso_Wilson_estimate 44.566 _reflns.observed_criterion_sigma_I -3.00 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.00 2.07 9495 ? 2578 0.665 2.0 ? ? ? ? ? 97.40 1 1 2.07 2.15 9857 ? 2613 0.473 2.9 ? ? ? ? ? 100.00 2 1 2.15 2.25 10451 ? 2754 0.335 4.1 ? ? ? ? ? 100.00 3 1 2.25 2.37 10424 ? 2740 0.226 5.9 ? ? ? ? ? 100.00 4 1 2.37 2.52 10285 ? 2697 0.156 8.5 ? ? ? ? ? 100.00 5 1 2.52 2.71 10083 ? 2645 0.102 12.4 ? ? ? ? ? 100.00 6 1 2.71 2.99 10572 ? 2771 0.064 18.4 ? ? ? ? ? 99.90 7 1 2.99 3.42 10165 ? 2663 0.041 26.8 ? ? ? ? ? 100.00 8 1 3.42 4.30 10128 ? 2689 0.029 37.8 ? ? ? ? ? 99.90 9 1 4.30 28.364 10208 ? 2724 0.023 42.9 ? ? ? ? ? 99.40 10 1 # _refine.entry_id 2RKH _refine.ls_d_res_high 2.000 _refine.ls_d_res_low 28.364 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 99.790 _refine.ls_number_reflns_obs 14640 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. RAMACHANDRAN OUTLIER RESIDUE 100 LIES IN A POORLY ORDERED REGION. 5. THERE IS SOME UNIDENTIFIED DENSITY NEAR RESIDUE 37. ; _refine.ls_R_factor_obs 0.214 _refine.ls_R_factor_R_work 0.212 _refine.ls_R_factor_R_free 0.256 _refine.ls_percent_reflns_R_free 5.000 _refine.ls_number_reflns_R_free 736 _refine.B_iso_mean 39.306 _refine.aniso_B[1][1] -0.270 _refine.aniso_B[2][2] -0.270 _refine.aniso_B[3][3] 0.540 _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 0.948 _refine.correlation_coeff_Fo_to_Fc_free 0.933 _refine.pdbx_overall_ESU_R 0.166 _refine.pdbx_overall_ESU_R_Free 0.159 _refine.overall_SU_ML 0.116 _refine.overall_SU_B 8.358 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_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 1211 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 57 _refine_hist.number_atoms_total 1268 _refine_hist.d_res_high 2.000 _refine_hist.d_res_low 28.364 # 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 1253 0.014 0.021 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 851 0.003 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1697 1.456 1.998 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 2069 1.341 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 168 3.608 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 46 24.380 21.522 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 220 10.605 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 14 13.118 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 205 0.080 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1396 0.005 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 256 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 253 0.187 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 782 0.125 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 620 0.139 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 621 0.074 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 46 0.100 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 14 0.131 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 67 0.175 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 6 0.062 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 967 2.035 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 340 0.392 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1292 2.621 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 458 4.326 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 401 5.758 11.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.000 _refine_ls_shell.d_res_low 2.052 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 98.370 _refine_ls_shell.number_reflns_R_work 974 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.263 _refine_ls_shell.R_factor_R_free 0.346 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 51 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1025 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2RKH _struct.title ;Crystal structure of a putative AphA-like transcription factor (ZP_00208345.1) from Magnetospirillum magnetotacticum MS-1 at 2.00 A resolution ; _struct.pdbx_descriptor 'Putative AphA-like transcription factor' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;ZP_00208345.1, Putative AphA-like Transcription Factor, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, TRANSCRIPTION ; _struct_keywords.pdbx_keywords TRANSCRIPTION _struct_keywords.entry_id 2RKH # 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 ? # _struct_biol.id 1 _struct_biol.details ;THE ASSIGNMENT OF A DIMER AS A SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION IS SUPPORTED BY SIZE EXCLUSION CHROMATOGRAPHY WITH STATIC LIGHT SCATTERING. ; # 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 THR A 9 ? GLN A 25 ? THR A 8 GLN A 24 1 ? 17 HELX_P HELX_P2 2 TYR A 29 ? GLY A 45 ? TYR A 28 GLY A 44 1 ? 17 HELX_P HELX_P3 3 SER A 47 ? MSE A 51 ? SER A 46 MSE A 50 5 ? 5 HELX_P HELX_P4 4 ILE A 55 ? GLU A 61 ? ILE A 54 GLU A 60 1 ? 7 HELX_P HELX_P5 5 SER A 82 ? THR A 94 ? SER A 81 THR A 93 1 ? 13 HELX_P HELX_P6 6 LEU A 103 ? PHE A 114 ? LEU A 102 PHE A 113 1 ? 12 HELX_P HELX_P7 7 LEU A 115 ? MSE A 118 ? LEU A 114 MSE A 117 5 ? 4 HELX_P HELX_P8 8 GLU A 119 ? GLY A 146 ? GLU A 118 GLY A 145 1 ? 28 HELX_P HELX_P9 9 SER A 153 ? LEU A 180 ? SER A 152 LEU A 179 1 ? 28 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale both ? A PRO 26 C ? ? ? 1_555 A MSE 27 N ? ? A PRO 25 A MSE 26 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale both ? A MSE 27 C ? ? ? 1_555 A ARG 28 N ? ? A MSE 26 A ARG 27 1_555 ? ? ? ? ? ? ? 1.325 ? covale3 covale both ? A ILE 43 C ? ? ? 1_555 A MSE 44 N ? ? A ILE 42 A MSE 43 1_555 ? ? ? ? ? ? ? 1.340 ? covale4 covale both ? A MSE 44 C ? ? ? 1_555 A GLY 45 N ? ? A MSE 43 A GLY 44 1_555 ? ? ? ? ? ? ? 1.325 ? covale5 covale both ? A LEU 50 C ? ? ? 1_555 A MSE 51 N ? ? A LEU 49 A MSE 50 1_555 ? ? ? ? ? ? ? 1.335 ? covale6 covale both ? A MSE 51 C ? ? ? 1_555 A GLY 52 N ? ? A MSE 50 A GLY 51 1_555 ? ? ? ? ? ? ? 1.335 ? covale7 covale both ? A ALA 77 C ? ? ? 1_555 A MSE 78 N ? ? A ALA 76 A MSE 77 1_555 ? ? ? ? ? ? ? 1.342 ? covale8 covale both ? A MSE 78 C ? ? ? 1_555 A LEU 79 N ? ? A MSE 77 A LEU 78 1_555 ? ? ? ? ? ? ? 1.340 ? covale9 covale both ? A LYS 111 C ? ? ? 1_555 A MSE 112 N ? ? A LYS 110 A MSE 111 1_555 ? ? ? ? ? ? ? 1.333 ? covale10 covale both ? A MSE 112 C ? ? ? 1_555 A ARG 113 N ? ? A MSE 111 A ARG 112 1_555 ? ? ? ? ? ? ? 1.338 ? covale11 covale both ? A LEU 117 C ? ? ? 1_555 A MSE 118 N ? ? A LEU 116 A MSE 117 1_555 ? ? ? ? ? ? ? 1.333 ? covale12 covale both ? A MSE 118 C ? ? ? 1_555 A GLU 119 N ? ? A MSE 117 A GLU 118 1_555 ? ? ? ? ? ? ? 1.333 ? covale13 covale both ? A ASP 162 C ? ? ? 1_555 A MSE 163 N ? ? A ASP 161 A MSE 162 1_555 ? ? ? ? ? ? ? 1.326 ? covale14 covale both ? A MSE 163 C ? ? ? 1_555 A ALA 164 N ? ? A MSE 162 A ALA 163 1_555 ? ? ? ? ? ? ? 1.341 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _struct_sheet.details ? # 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 # 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 MSE A 27 ? ARG A 28 ? MSE A 26 ARG A 27 A 2 MSE A 78 ? ILE A 81 ? MSE A 77 ILE A 80 A 3 VAL A 64 ? GLU A 65 ? VAL A 63 GLU A 64 # 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 MSE A 27 ? N MSE A 26 O LEU A 79 ? O LEU A 78 A 2 3 O ALA A 80 ? O ALA A 79 N GLU A 65 ? N GLU A 64 # _atom_sites.entry_id 2RKH _atom_sites.fract_transf_matrix[1][1] 0.015011 _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] 0.015011 _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] 0.010799 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 0 ? ? ? A . n A 1 2 MSE 2 1 ? ? ? A . n A 1 3 PHE 3 2 ? ? ? A . n A 1 4 ALA 4 3 ? ? ? A . n A 1 5 ASP 5 4 ? ? ? A . n A 1 6 ASN 6 5 ? ? ? A . n A 1 7 THR 7 6 6 THR THR A . n A 1 8 LEU 8 7 7 LEU LEU A . n A 1 9 THR 9 8 8 THR THR A . n A 1 10 PRO 10 9 9 PRO PRO A . n A 1 11 LYS 11 10 10 LYS LYS A . n A 1 12 GLU 12 11 11 GLU GLU A . n A 1 13 ALA 13 12 12 ALA ALA A . n A 1 14 VAL 14 13 13 VAL VAL A . n A 1 15 ARG 15 14 14 ARG ARG A . n A 1 16 LEU 16 15 15 LEU LEU A . n A 1 17 CYS 17 16 16 CYS CYS A . n A 1 18 ALA 18 17 17 ALA ALA A . n A 1 19 LEU 19 18 18 LEU LEU A . n A 1 20 GLY 20 19 19 GLY GLY A . n A 1 21 THR 21 20 20 THR THR A . n A 1 22 ILE 22 21 21 ILE ILE A . n A 1 23 ALA 23 22 22 ALA ALA A . n A 1 24 SER 24 23 23 SER SER A . n A 1 25 GLN 25 24 24 GLN GLN A . n A 1 26 PRO 26 25 25 PRO PRO A . n A 1 27 MSE 27 26 26 MSE MSE A . n A 1 28 ARG 28 27 27 ARG ARG A . n A 1 29 TYR 29 28 28 TYR TYR A . n A 1 30 SER 30 29 29 SER SER A . n A 1 31 GLU 31 30 30 GLU GLU A . n A 1 32 LEU 32 31 31 LEU LEU A . n A 1 33 ALA 33 32 32 ALA ALA A . n A 1 34 GLY 34 33 33 GLY GLY A . n A 1 35 SER 35 34 34 SER SER A . n A 1 36 VAL 36 35 35 VAL VAL A . n A 1 37 ARG 37 36 36 ARG ARG A . n A 1 38 HIS 38 37 37 HIS HIS A . n A 1 39 PHE 39 38 38 PHE PHE A . n A 1 40 THR 40 39 39 THR THR A . n A 1 41 SER 41 40 40 SER SER A . n A 1 42 ARG 42 41 41 ARG ARG A . n A 1 43 ILE 43 42 42 ILE ILE A . n A 1 44 MSE 44 43 43 MSE MSE A . n A 1 45 GLY 45 44 44 GLY GLY A . n A 1 46 PRO 46 45 45 PRO PRO A . n A 1 47 SER 47 46 46 SER SER A . n A 1 48 LEU 48 47 47 LEU LEU A . n A 1 49 GLU 49 48 48 GLU GLU A . n A 1 50 LEU 50 49 49 LEU LEU A . n A 1 51 MSE 51 50 50 MSE MSE A . n A 1 52 GLY 52 51 51 GLY GLY A . n A 1 53 ILE 53 52 52 ILE ILE A . n A 1 54 SER 54 53 53 SER SER A . n A 1 55 ILE 55 54 54 ILE ILE A . n A 1 56 GLU 56 55 55 GLU GLU A . n A 1 57 LEU 57 56 56 LEU LEU A . n A 1 58 LEU 58 57 57 LEU LEU A . n A 1 59 ARG 59 58 58 ARG ARG A . n A 1 60 TYR 60 59 59 TYR TYR A . n A 1 61 GLU 61 60 60 GLU GLU A . n A 1 62 GLY 62 61 61 GLY GLY A . n A 1 63 LEU 63 62 62 LEU LEU A . n A 1 64 VAL 64 63 63 VAL VAL A . n A 1 65 GLU 65 64 64 GLU GLU A . n A 1 66 ALA 66 65 65 ALA ALA A . n A 1 67 VAL 67 66 66 VAL VAL A . n A 1 68 ASP 68 67 ? ? ? A . n A 1 69 ASP 69 68 ? ? ? A . n A 1 70 GLY 70 69 ? ? ? A . n A 1 71 GLN 71 70 ? ? ? A . n A 1 72 GLY 72 71 ? ? ? A . n A 1 73 MSE 73 72 ? ? ? A . n A 1 74 GLU 74 73 ? ? ? A . n A 1 75 ASP 75 74 ? ? ? A . n A 1 76 ASP 76 75 75 ASP ASP A . n A 1 77 ALA 77 76 76 ALA ALA A . n A 1 78 MSE 78 77 77 MSE MSE A . n A 1 79 LEU 79 78 78 LEU LEU A . n A 1 80 ALA 80 79 79 ALA ALA A . n A 1 81 ILE 81 80 80 ILE ILE A . n A 1 82 SER 82 81 81 SER SER A . n A 1 83 ALA 83 82 82 ALA ALA A . n A 1 84 ALA 84 83 83 ALA ALA A . n A 1 85 GLY 85 84 84 GLY GLY A . n A 1 86 ARG 86 85 85 ARG ARG A . n A 1 87 ARG 87 86 86 ARG ARG A . n A 1 88 GLU 88 87 87 GLU GLU A . n A 1 89 LEU 89 88 88 LEU LEU A . n A 1 90 HIS 90 89 89 HIS HIS A . n A 1 91 SER 91 90 90 SER SER A . n A 1 92 LEU 92 91 91 LEU LEU A . n A 1 93 LEU 93 92 92 LEU LEU A . n A 1 94 THR 94 93 93 THR THR A . n A 1 95 ALA 95 94 94 ALA ALA A . n A 1 96 ARG 96 95 95 ARG ARG A . n A 1 97 LEU 97 96 96 LEU LEU A . n A 1 98 ARG 98 97 97 ARG ARG A . n A 1 99 PRO 99 98 98 PRO PRO A . n A 1 100 GLY 100 99 99 GLY GLY A . n A 1 101 SER 101 100 100 SER SER A . n A 1 102 ASP 102 101 101 ASP ASP A . n A 1 103 LEU 103 102 102 LEU LEU A . n A 1 104 SER 104 103 103 SER SER A . n A 1 105 LYS 105 104 104 LYS LYS A . n A 1 106 LEU 106 105 105 LEU LEU A . n A 1 107 VAL 107 106 106 VAL VAL A . n A 1 108 VAL 108 107 107 VAL VAL A . n A 1 109 ALA 109 108 108 ALA ALA A . n A 1 110 LEU 110 109 109 LEU LEU A . n A 1 111 LYS 111 110 110 LYS LYS A . n A 1 112 MSE 112 111 111 MSE MSE A . n A 1 113 ARG 113 112 112 ARG ARG A . n A 1 114 PHE 114 113 113 PHE PHE A . n A 1 115 LEU 115 114 114 LEU LEU A . n A 1 116 GLY 116 115 115 GLY GLY A . n A 1 117 LEU 117 116 116 LEU LEU A . n A 1 118 MSE 118 117 117 MSE MSE A . n A 1 119 GLU 119 118 118 GLU GLU A . n A 1 120 ALA 120 119 119 ALA ALA A . n A 1 121 GLU 121 120 120 GLU GLU A . n A 1 122 GLU 122 121 121 GLU GLU A . n A 1 123 ARG 123 122 122 ARG ARG A . n A 1 124 ALA 124 123 123 ALA ALA A . n A 1 125 HIS 125 124 124 HIS HIS A . n A 1 126 GLN 126 125 125 GLN GLN A . n A 1 127 ILE 127 126 126 ILE ILE A . n A 1 128 ASP 128 127 127 ASP ASP A . n A 1 129 LEU 129 128 128 LEU LEU A . n A 1 130 LEU 130 129 129 LEU LEU A . n A 1 131 ILE 131 130 130 ILE ILE A . n A 1 132 GLU 132 131 131 GLU GLU A . n A 1 133 GLY 133 132 132 GLY GLY A . n A 1 134 VAL 134 133 133 VAL VAL A . n A 1 135 ASP 135 134 134 ASP ASP A . n A 1 136 SER 136 135 135 SER SER A . n A 1 137 GLU 137 136 136 GLU GLU A . n A 1 138 LEU 138 137 137 LEU LEU A . n A 1 139 ALA 139 138 138 ALA ALA A . n A 1 140 ARG 140 139 139 ARG ARG A . n A 1 141 LEU 141 140 140 LEU LEU A . n A 1 142 ALA 142 141 141 ALA ALA A . n A 1 143 ASP 143 142 142 ASP ASP A . n A 1 144 LEU 144 143 143 LEU LEU A . n A 1 145 ARG 145 144 144 ARG ARG A . n A 1 146 GLY 146 145 145 GLY GLY A . n A 1 147 SER 147 146 ? ? ? A . n A 1 148 ASP 148 147 ? ? ? A . n A 1 149 GLY 149 148 148 GLY GLY A . n A 1 150 GLU 150 149 149 GLU GLU A . n A 1 151 GLY 151 150 150 GLY GLY A . n A 1 152 GLY 152 151 151 GLY GLY A . n A 1 153 SER 153 152 152 SER SER A . n A 1 154 ALA 154 153 153 ALA ALA A . n A 1 155 LEU 155 154 154 LEU LEU A . n A 1 156 ALA 156 155 155 ALA ALA A . n A 1 157 ALA 157 156 156 ALA ALA A . n A 1 158 TRP 158 157 157 TRP TRP A . n A 1 159 LEU 159 158 158 LEU LEU A . n A 1 160 ASP 160 159 159 ASP ASP A . n A 1 161 HIS 161 160 160 HIS HIS A . n A 1 162 ASP 162 161 161 ASP ASP A . n A 1 163 MSE 163 162 162 MSE MSE A . n A 1 164 ALA 164 163 163 ALA ALA A . n A 1 165 LEU 165 164 164 LEU LEU A . n A 1 166 LEU 166 165 165 LEU LEU A . n A 1 167 GLU 167 166 166 GLU GLU A . n A 1 168 SER 168 167 167 SER SER A . n A 1 169 ARG 169 168 168 ARG ARG A . n A 1 170 LEU 170 169 169 LEU LEU A . n A 1 171 ALA 171 170 170 ALA ALA A . n A 1 172 TRP 172 171 171 TRP TRP A . n A 1 173 LEU 173 172 172 LEU LEU A . n A 1 174 GLU 174 173 173 GLU GLU A . n A 1 175 ASP 175 174 174 ASP ASP A . n A 1 176 PHE 176 175 175 PHE PHE A . n A 1 177 ARG 177 176 176 ARG ARG A . n A 1 178 ALA 178 177 177 ALA ALA A . n A 1 179 ARG 179 178 178 ARG ARG A . n A 1 180 LEU 180 179 179 LEU LEU 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 HOH 1 180 1 HOH HOH A . B 2 HOH 2 181 2 HOH HOH A . B 2 HOH 3 182 3 HOH HOH A . B 2 HOH 4 183 4 HOH HOH A . B 2 HOH 5 184 5 HOH HOH A . B 2 HOH 6 185 6 HOH HOH A . B 2 HOH 7 186 7 HOH HOH A . B 2 HOH 8 187 8 HOH HOH A . B 2 HOH 9 188 9 HOH HOH A . B 2 HOH 10 189 10 HOH HOH A . B 2 HOH 11 190 11 HOH HOH A . B 2 HOH 12 191 12 HOH HOH A . B 2 HOH 13 192 13 HOH HOH A . B 2 HOH 14 193 14 HOH HOH A . B 2 HOH 15 194 15 HOH HOH A . B 2 HOH 16 195 16 HOH HOH A . B 2 HOH 17 196 17 HOH HOH A . B 2 HOH 18 197 18 HOH HOH A . B 2 HOH 19 198 19 HOH HOH A . B 2 HOH 20 199 20 HOH HOH A . B 2 HOH 21 200 21 HOH HOH A . B 2 HOH 22 201 22 HOH HOH A . B 2 HOH 23 202 23 HOH HOH A . B 2 HOH 24 203 24 HOH HOH A . B 2 HOH 25 204 25 HOH HOH A . B 2 HOH 26 205 26 HOH HOH A . B 2 HOH 27 206 27 HOH HOH A . B 2 HOH 28 207 28 HOH HOH A . B 2 HOH 29 208 29 HOH HOH A . B 2 HOH 30 209 30 HOH HOH A . B 2 HOH 31 210 31 HOH HOH A . B 2 HOH 32 211 32 HOH HOH A . B 2 HOH 33 212 33 HOH HOH A . B 2 HOH 34 213 34 HOH HOH A . B 2 HOH 35 214 35 HOH HOH A . B 2 HOH 36 215 36 HOH HOH A . B 2 HOH 37 216 37 HOH HOH A . B 2 HOH 38 217 38 HOH HOH A . B 2 HOH 39 218 39 HOH HOH A . B 2 HOH 40 219 40 HOH HOH A . B 2 HOH 41 220 41 HOH HOH A . B 2 HOH 42 221 42 HOH HOH A . B 2 HOH 43 222 43 HOH HOH A . B 2 HOH 44 223 44 HOH HOH A . B 2 HOH 45 224 45 HOH HOH A . B 2 HOH 46 225 46 HOH HOH A . B 2 HOH 47 226 47 HOH HOH A . B 2 HOH 48 227 48 HOH HOH A . B 2 HOH 49 228 49 HOH HOH A . B 2 HOH 50 229 50 HOH HOH A . B 2 HOH 51 230 51 HOH HOH A . B 2 HOH 52 231 52 HOH HOH A . B 2 HOH 53 232 53 HOH HOH A . B 2 HOH 54 233 54 HOH HOH A . B 2 HOH 55 234 55 HOH HOH A . B 2 HOH 56 235 56 HOH HOH A . B 2 HOH 57 236 57 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 27 A MSE 26 ? MET SELENOMETHIONINE 2 A MSE 44 A MSE 43 ? MET SELENOMETHIONINE 3 A MSE 51 A MSE 50 ? MET SELENOMETHIONINE 4 A MSE 78 A MSE 77 ? MET SELENOMETHIONINE 5 A MSE 112 A MSE 111 ? MET SELENOMETHIONINE 6 A MSE 118 A MSE 117 ? MET SELENOMETHIONINE 7 A MSE 163 A MSE 162 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 5810 _pdbx_struct_assembly_prop.details ? # 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' 7_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 2007-10-30 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2019-07-24 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' Advisory 2 2 'Structure model' 'Source and taxonomy' 3 2 'Structure model' 'Version format compliance' 4 3 'Structure model' 'Author supporting evidence' 5 3 'Structure model' 'Refinement description' 6 4 'Structure model' 'Data collection' 7 4 'Structure model' 'Derived calculations' 8 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' pdbx_struct_assembly_auth_evidence 2 3 'Structure model' software 3 4 'Structure model' software 4 4 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_software.classification' 4 4 'Structure model' '_software.contact_author' 5 4 'Structure model' '_software.contact_author_email' 6 4 'Structure model' '_software.language' 7 4 'Structure model' '_software.location' 8 4 'Structure model' '_software.name' 9 4 'Structure model' '_software.type' 10 4 'Structure model' '_software.version' 11 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 17.7400 _pdbx_refine_tls.origin_y 16.5630 _pdbx_refine_tls.origin_z 8.6790 _pdbx_refine_tls.T[1][1] -0.1713 _pdbx_refine_tls.T[2][2] -0.1163 _pdbx_refine_tls.T[3][3] -0.0953 _pdbx_refine_tls.T[1][2] -0.0007 _pdbx_refine_tls.T[1][3] 0.0144 _pdbx_refine_tls.T[2][3] 0.0372 _pdbx_refine_tls.L[1][1] 2.1808 _pdbx_refine_tls.L[2][2] 2.2507 _pdbx_refine_tls.L[3][3] 3.6268 _pdbx_refine_tls.L[1][2] 0.2720 _pdbx_refine_tls.L[1][3] 0.5678 _pdbx_refine_tls.L[2][3] -1.0641 _pdbx_refine_tls.S[1][1] 0.0816 _pdbx_refine_tls.S[2][2] 0.0160 _pdbx_refine_tls.S[3][3] -0.0976 _pdbx_refine_tls.S[1][2] -0.3340 _pdbx_refine_tls.S[1][3] -0.4478 _pdbx_refine_tls.S[2][3] 0.1797 _pdbx_refine_tls.S[2][1] 0.0246 _pdbx_refine_tls.S[3][1] 0.2893 _pdbx_refine_tls.S[3][2] -0.2128 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 A 7 A 67 ? A 6 A 66 'X-RAY DIFFRACTION' ? 2 1 A 76 A 146 ? A 75 A 145 'X-RAY DIFFRACTION' ? 3 1 A 149 A 180 ? A 148 A 179 'X-RAY DIFFRACTION' ? # _phasing.method MAD # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal REFMAC 5.3.0040 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SHELX . ? package 'George Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 3 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 4 XSCALE . ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/xscale_program.html ? ? 5 PDB_EXTRACT 3.000 'July 2, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 6 ADSC Quantum ? ? ? ? 'data collection' ? ? ? 7 XDS . ? ? ? ? 'data reduction' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? 9 SHARP . ? ? ? ? phasing ? ? ? 10 # _pdbx_database_remark.id 999 _pdbx_database_remark.text ; SEQUENCE 1. THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. 2. THE SEQUENCE OF THIS PROTEIN WAS NOT AVAILABLE AT THE UNIPROT DATABASE AT THE TIME OF DEPOSITION. THE SEQUENCE INFORMATION IS AVAILABLE AT GENBANK WITH ACCESSION CODE ZP_00208345.1. ; # _pdbx_entry_details.entry_id 2RKH _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;REMARK 999 SEQUENCE: THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION REMARK 999 TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. ; # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 THR A 93 ? ? -103.15 62.99 2 1 SER A 100 ? ? 96.75 42.06 3 1 ASP A 101 ? ? -170.79 58.10 4 1 GLU A 149 ? ? 59.81 86.04 # 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 10 ? CG ? A LYS 11 CG 2 1 Y 1 A LYS 10 ? CD ? A LYS 11 CD 3 1 Y 1 A LYS 10 ? CE ? A LYS 11 CE 4 1 Y 1 A LYS 10 ? NZ ? A LYS 11 NZ 5 1 Y 1 A GLN 24 ? CG ? A GLN 25 CG 6 1 Y 1 A GLN 24 ? CD ? A GLN 25 CD 7 1 Y 1 A GLN 24 ? OE1 ? A GLN 25 OE1 8 1 Y 1 A GLN 24 ? NE2 ? A GLN 25 NE2 9 1 Y 1 A GLU 55 ? CG ? A GLU 56 CG 10 1 Y 1 A GLU 55 ? CD ? A GLU 56 CD 11 1 Y 1 A GLU 55 ? OE1 ? A GLU 56 OE1 12 1 Y 1 A GLU 55 ? OE2 ? A GLU 56 OE2 13 1 Y 1 A ARG 58 ? CG ? A ARG 59 CG 14 1 Y 1 A ARG 58 ? CD ? A ARG 59 CD 15 1 Y 1 A ARG 58 ? NE ? A ARG 59 NE 16 1 Y 1 A ARG 58 ? CZ ? A ARG 59 CZ 17 1 Y 1 A ARG 58 ? NH1 ? A ARG 59 NH1 18 1 Y 1 A ARG 58 ? NH2 ? A ARG 59 NH2 19 1 Y 1 A TYR 59 ? CG ? A TYR 60 CG 20 1 Y 1 A TYR 59 ? CD1 ? A TYR 60 CD1 21 1 Y 1 A TYR 59 ? CD2 ? A TYR 60 CD2 22 1 Y 1 A TYR 59 ? CE1 ? A TYR 60 CE1 23 1 Y 1 A TYR 59 ? CE2 ? A TYR 60 CE2 24 1 Y 1 A TYR 59 ? CZ ? A TYR 60 CZ 25 1 Y 1 A TYR 59 ? OH ? A TYR 60 OH 26 1 Y 1 A ARG 95 ? CG ? A ARG 96 CG 27 1 Y 1 A ARG 95 ? CD ? A ARG 96 CD 28 1 Y 1 A ARG 95 ? NE ? A ARG 96 NE 29 1 Y 1 A ARG 95 ? CZ ? A ARG 96 CZ 30 1 Y 1 A ARG 95 ? NH1 ? A ARG 96 NH1 31 1 Y 1 A ARG 95 ? NH2 ? A ARG 96 NH2 32 1 Y 1 A ARG 97 ? CG ? A ARG 98 CG 33 1 Y 1 A ARG 97 ? CD ? A ARG 98 CD 34 1 Y 1 A ARG 97 ? NE ? A ARG 98 NE 35 1 Y 1 A ARG 97 ? CZ ? A ARG 98 CZ 36 1 Y 1 A ARG 97 ? NH1 ? A ARG 98 NH1 37 1 Y 1 A ARG 97 ? NH2 ? A ARG 98 NH2 38 1 Y 1 A LYS 104 ? CE ? A LYS 105 CE 39 1 Y 1 A LYS 104 ? NZ ? A LYS 105 NZ 40 1 Y 1 A GLU 118 ? OE1 ? A GLU 119 OE1 41 1 Y 1 A GLU 118 ? OE2 ? A GLU 119 OE2 42 1 Y 1 A GLU 120 ? CG ? A GLU 121 CG 43 1 Y 1 A GLU 120 ? CD ? A GLU 121 CD 44 1 Y 1 A GLU 120 ? OE1 ? A GLU 121 OE1 45 1 Y 1 A GLU 120 ? OE2 ? A GLU 121 OE2 46 1 Y 1 A GLU 149 ? CD ? A GLU 150 CD 47 1 Y 1 A GLU 149 ? OE1 ? A GLU 150 OE1 48 1 Y 1 A GLU 149 ? OE2 ? A GLU 150 OE2 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY 0 ? A GLY 1 2 1 Y 1 A MSE 1 ? A MSE 2 3 1 Y 1 A PHE 2 ? A PHE 3 4 1 Y 1 A ALA 3 ? A ALA 4 5 1 Y 1 A ASP 4 ? A ASP 5 6 1 Y 1 A ASN 5 ? A ASN 6 7 1 Y 1 A ASP 67 ? A ASP 68 8 1 Y 1 A ASP 68 ? A ASP 69 9 1 Y 1 A GLY 69 ? A GLY 70 10 1 Y 1 A GLN 70 ? A GLN 71 11 1 Y 1 A GLY 71 ? A GLY 72 12 1 Y 1 A MSE 72 ? A MSE 73 13 1 Y 1 A GLU 73 ? A GLU 74 14 1 Y 1 A ASP 74 ? A ASP 75 15 1 Y 1 A SER 146 ? A SER 147 16 1 Y 1 A ASP 147 ? A ASP 148 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id 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' ? #