data_2GPI # _entry.id 2GPI # _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 2GPI pdb_00002gpi 10.2210/pdb2gpi/pdb RCSB RCSB037396 ? ? WWPDB D_1000037396 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 361143 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 2GPI _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2006-04-17 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _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 conserved hypothetical protein (ZP_00837230.1) from Shewanella sp. PV-4 at 1.60 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 2GPI _cell.length_a 48.030 _cell.length_b 83.250 _cell.length_c 58.280 _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.Int_Tables_number 20 _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.entry_id 2GPI _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 'conserved hypothetical protein' 10612.487 1 ? ? ? ? 2 non-polymer syn 1,2-ETHANEDIOL 62.068 1 ? ? ? ? 3 water nat water 18.015 99 ? ? ? ? # _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)NQSIIFTEQLTWDVQLSAIHFTAQQQG(MSE)VIDCYIGQKVLEHLAAEKINNSEQALSLFEQFRFDIEEQAEK LIEQEAFDVQGHIQVERVD ; _entity_poly.pdbx_seq_one_letter_code_can ;GMNQSIIFTEQLTWDVQLSAIHFTAQQQGMVIDCYIGQKVLEHLAAEKINNSEQALSLFEQFRFDIEEQAEKLIEQEAFD VQGHIQVERVD ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 361143 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 MSE n 1 3 ASN n 1 4 GLN n 1 5 SER n 1 6 ILE n 1 7 ILE n 1 8 PHE n 1 9 THR n 1 10 GLU n 1 11 GLN n 1 12 LEU n 1 13 THR n 1 14 TRP n 1 15 ASP n 1 16 VAL n 1 17 GLN n 1 18 LEU n 1 19 SER n 1 20 ALA n 1 21 ILE n 1 22 HIS n 1 23 PHE n 1 24 THR n 1 25 ALA n 1 26 GLN n 1 27 GLN n 1 28 GLN n 1 29 GLY n 1 30 MSE n 1 31 VAL n 1 32 ILE n 1 33 ASP n 1 34 CYS n 1 35 TYR n 1 36 ILE n 1 37 GLY n 1 38 GLN n 1 39 LYS n 1 40 VAL n 1 41 LEU n 1 42 GLU n 1 43 HIS n 1 44 LEU n 1 45 ALA n 1 46 ALA n 1 47 GLU n 1 48 LYS n 1 49 ILE n 1 50 ASN n 1 51 ASN n 1 52 SER n 1 53 GLU n 1 54 GLN n 1 55 ALA n 1 56 LEU n 1 57 SER n 1 58 LEU n 1 59 PHE n 1 60 GLU n 1 61 GLN n 1 62 PHE n 1 63 ARG n 1 64 PHE n 1 65 ASP n 1 66 ILE n 1 67 GLU n 1 68 GLU n 1 69 GLN n 1 70 ALA n 1 71 GLU n 1 72 LYS n 1 73 LEU n 1 74 ILE n 1 75 GLU n 1 76 GLN n 1 77 GLU n 1 78 ALA n 1 79 PHE n 1 80 ASP n 1 81 VAL n 1 82 GLN n 1 83 GLY n 1 84 HIS n 1 85 ILE n 1 86 GLN n 1 87 VAL n 1 88 GLU n 1 89 ARG n 1 90 VAL n 1 91 ASP n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus Shewanella _entity_src_gen.pdbx_gene_src_gene ZP_00837230.1 _entity_src_gen.gene_src_species 'Shewanella loihica' _entity_src_gen.gene_src_strain PV-4 _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 'Shewanella loihica' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 323850 _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 Q33UM0_9GAMM _struct_ref.pdbx_db_accession Q33UM0 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2GPI _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 91 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q33UM0 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 90 _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 90 # 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 2GPI GLY A 1 ? UNP Q33UM0 ? ? 'expression tag' 0 1 1 2GPI MSE A 2 ? UNP Q33UM0 MET 1 'modified residue' 1 2 1 2GPI MSE A 30 ? UNP Q33UM0 MET 29 'modified residue' 29 3 # 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 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 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 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 2GPI # _exptl_crystal.id 1 _exptl_crystal.density_percent_sol 55.19 _exptl_crystal.density_Matthews 2.74 _exptl_crystal.description ? _exptl_crystal.density_meas ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP, NANODROP' _exptl_crystal_grow.pH 4.6 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '2.0M (NH4)2SO4, 0.1M Acetate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'Flat collimating mirror, toroid focusing mirror' _diffrn_detector.pdbx_collection_date 2006-03-12 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Double crystal monochromator' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.91837 1.0 2 0.97925 1.0 3 0.97858 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL9-2 _diffrn_source.type 'SSRL BEAMLINE BL9-2' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.91837, 0.97925, 0.97858' _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 2GPI _reflns.d_resolution_high 1.600 _reflns.number_obs 15507 _reflns.pdbx_Rmerge_I_obs 0.056 _reflns.pdbx_netI_over_sigmaI 11.370 _reflns.percent_possible_obs 93.000 _reflns.B_iso_Wilson_estimate 22.412 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_low 29.14 _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_all _reflns_shell.number_unique_all _reflns_shell.percent_possible_obs _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.60 1.66 6719 ? 2737 0.339 2.8 ? ? ? 87.70 ? ? 1 1 1.66 1.72 6380 ? 2469 0.294 3.3 ? ? ? 91.20 ? ? 2 1 1.72 1.80 7308 ? 2811 0.225 4.3 ? ? ? 92.60 ? ? 3 1 1.80 1.90 7655 ? 2931 0.164 5.7 ? ? ? 93.50 ? ? 4 1 1.90 2.02 7360 ? 2813 0.111 8.1 ? ? ? 94.60 ? ? 5 1 2.02 2.17 7245 ? 2736 0.08 11.0 ? ? ? 95.00 ? ? 6 1 2.17 2.39 7610 ? 2850 0.065 13.6 ? ? ? 94.50 ? ? 7 1 2.39 2.73 7428 ? 2764 0.052 16.1 ? ? ? 94.40 ? ? 8 1 2.73 ? 7751 ? 2852 0.046 19.0 ? ? ? 94.10 ? ? 9 1 # _refine.ls_d_res_high 1.600 _refine.ls_d_res_low 29.14 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 98.140 _refine.ls_number_reflns_obs 15490 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;(1) HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. (2) A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. (3) EDO WAS ADDED BASED ON CRYSTALLIZATION CONDITION. (4) TLS GROUPS WERE ASSIGNED WITH THE AID OF TLSMD. (4) ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.151 _refine.ls_R_factor_R_free 0.172 _refine.ls_percent_reflns_R_free 5.000 _refine.ls_number_reflns_R_free 778 _refine.B_iso_mean 13.613 _refine.aniso_B[1][1] -0.530 _refine.aniso_B[2][2] 0.430 _refine.aniso_B[3][3] 0.110 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.969 _refine.correlation_coeff_Fo_to_Fc_free 0.959 _refine.pdbx_overall_ESU_R 0.069 _refine.pdbx_overall_ESU_R_Free 0.068 _refine.overall_SU_ML 0.043 _refine.overall_SU_B 2.472 _refine.solvent_model_details 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.entry_id 2GPI _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_obs 0.152 _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 733 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 99 _refine_hist.number_atoms_total 836 _refine_hist.d_res_high 1.600 _refine_hist.d_res_low 29.14 # 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 776 0.017 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 498 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1051 1.538 1.924 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1233 0.955 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 97 6.249 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 46 33.422 27.174 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 142 12.112 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 1 8.238 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 117 0.092 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 884 0.007 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 144 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 145 0.224 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 490 0.184 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 388 0.175 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 388 0.084 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 74 0.192 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 11 0.287 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 36 0.226 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 19 0.205 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 512 2.499 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 190 0.523 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 754 3.213 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 329 5.327 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 294 8.154 11.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.600 _refine_ls_shell.d_res_low 1.642 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 98.520 _refine_ls_shell.number_reflns_R_work 1075 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.213 _refine_ls_shell.R_factor_R_free 0.26 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 60 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs 1135 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2GPI _struct.title ;Crystal structure of a protein of unknown function from duf1488 family (shew_3726) from shewanella loihica pv-4 at 1.60 A resolution ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;Transcriptional regulation of the shikimate pathway, structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, unknown function ; _struct_keywords.pdbx_keywords 'UNKNOWN FUNCTION' _struct_keywords.entry_id 2GPI # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # _struct_biol.id 1 # 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 GLN A 38 ? ALA A 46 ? GLN A 37 ALA A 45 1 ? 9 HELX_P HELX_P2 2 ASN A 51 ? PHE A 62 ? ASN A 50 PHE A 61 1 ? 12 HELX_P HELX_P3 3 PHE A 62 ? GLN A 76 ? PHE A 61 GLN A 75 1 ? 15 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A GLY 1 C ? ? ? 1_555 A MSE 2 N ? ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale2 covale both ? A MSE 2 C ? ? ? 1_555 A ASN 3 N ? ? A MSE 1 A ASN 2 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale3 covale both ? A GLY 29 C ? ? ? 1_555 A MSE 30 N ? ? A GLY 28 A MSE 29 1_555 ? ? ? ? ? ? ? 1.318 ? ? covale4 covale both ? A MSE 30 C ? ? ? 1_555 A VAL 31 N ? ? A MSE 29 A VAL 30 1_555 ? ? ? ? ? ? ? 1.318 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? B ? 4 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? 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 ILE A 6 ? PHE A 8 ? ILE A 5 PHE A 7 A 2 ALA A 20 ? GLN A 27 ? ALA A 19 GLN A 26 A 3 THR A 13 ? ASP A 15 ? THR A 12 ASP A 14 B 1 ILE A 6 ? PHE A 8 ? ILE A 5 PHE A 7 B 2 ALA A 20 ? GLN A 27 ? ALA A 19 GLN A 26 B 3 MSE A 30 ? GLY A 37 ? MSE A 29 GLY A 36 B 4 ILE A 85 ? VAL A 87 ? ILE A 84 VAL A 86 # 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 ILE A 7 ? N ILE A 6 O GLN A 26 ? O GLN A 25 A 2 3 O HIS A 22 ? O HIS A 21 N THR A 13 ? N THR A 12 B 1 2 N ILE A 7 ? N ILE A 6 O GLN A 26 ? O GLN A 25 B 2 3 N ALA A 25 ? N ALA A 24 O ILE A 32 ? O ILE A 31 B 3 4 N TYR A 35 ? N TYR A 34 O VAL A 87 ? O VAL A 86 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id EDO _struct_site.pdbx_auth_seq_id 91 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 4 _struct_site.details 'BINDING SITE FOR RESIDUE EDO A 91' # 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 4 GLN A 4 ? GLN A 3 . ? 1_555 ? 2 AC1 4 GLN A 17 ? GLN A 16 . ? 8_556 ? 3 AC1 4 GLU A 75 ? GLU A 74 . ? 1_555 ? 4 AC1 4 HOH C . ? HOH A 160 . ? 1_555 ? # _atom_sites.entry_id 2GPI _atom_sites.fract_transf_matrix[1][1] 0.02082 _atom_sites.fract_transf_matrix[1][2] 0.00000 _atom_sites.fract_transf_matrix[1][3] 0.00000 _atom_sites.fract_transf_matrix[2][1] 0.00000 _atom_sites.fract_transf_matrix[2][2] 0.01201 _atom_sites.fract_transf_matrix[2][3] 0.00000 _atom_sites.fract_transf_matrix[3][1] 0.00000 _atom_sites.fract_transf_matrix[3][2] 0.00000 _atom_sites.fract_transf_matrix[3][3] 0.01716 _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 S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 0 0 GLY GLY A . n A 1 2 MSE 2 1 1 MSE MSE A . n A 1 3 ASN 3 2 2 ASN ASN A . n A 1 4 GLN 4 3 3 GLN GLN A . n A 1 5 SER 5 4 4 SER SER A . n A 1 6 ILE 6 5 5 ILE ILE A . n A 1 7 ILE 7 6 6 ILE ILE A . n A 1 8 PHE 8 7 7 PHE PHE A . n A 1 9 THR 9 8 8 THR THR A . n A 1 10 GLU 10 9 9 GLU GLU A . n A 1 11 GLN 11 10 10 GLN GLN A . n A 1 12 LEU 12 11 11 LEU LEU A . n A 1 13 THR 13 12 12 THR THR A . n A 1 14 TRP 14 13 13 TRP TRP A . n A 1 15 ASP 15 14 14 ASP ASP A . n A 1 16 VAL 16 15 15 VAL VAL A . n A 1 17 GLN 17 16 16 GLN GLN A . n A 1 18 LEU 18 17 17 LEU LEU A . n A 1 19 SER 19 18 18 SER SER A . n A 1 20 ALA 20 19 19 ALA ALA A . n A 1 21 ILE 21 20 20 ILE ILE A . n A 1 22 HIS 22 21 21 HIS HIS A . n A 1 23 PHE 23 22 22 PHE PHE A . n A 1 24 THR 24 23 23 THR THR A . n A 1 25 ALA 25 24 24 ALA ALA A . n A 1 26 GLN 26 25 25 GLN GLN A . n A 1 27 GLN 27 26 26 GLN GLN A . n A 1 28 GLN 28 27 27 GLN GLN A . n A 1 29 GLY 29 28 28 GLY GLY A . n A 1 30 MSE 30 29 29 MSE MSE A . n A 1 31 VAL 31 30 30 VAL VAL A . n A 1 32 ILE 32 31 31 ILE ILE A . n A 1 33 ASP 33 32 32 ASP ASP A . n A 1 34 CYS 34 33 33 CYS CYS A . n A 1 35 TYR 35 34 34 TYR TYR A . n A 1 36 ILE 36 35 35 ILE ILE A . n A 1 37 GLY 37 36 36 GLY GLY A . n A 1 38 GLN 38 37 37 GLN GLN A . n A 1 39 LYS 39 38 38 LYS LYS A . n A 1 40 VAL 40 39 39 VAL VAL A . n A 1 41 LEU 41 40 40 LEU LEU A . n A 1 42 GLU 42 41 41 GLU GLU A . n A 1 43 HIS 43 42 42 HIS HIS A . n A 1 44 LEU 44 43 43 LEU LEU A . n A 1 45 ALA 45 44 44 ALA ALA A . n A 1 46 ALA 46 45 45 ALA ALA A . n A 1 47 GLU 47 46 46 GLU GLU A . n A 1 48 LYS 48 47 47 LYS LYS A . n A 1 49 ILE 49 48 48 ILE ILE A . n A 1 50 ASN 50 49 49 ASN ASN A . n A 1 51 ASN 51 50 50 ASN ASN A . n A 1 52 SER 52 51 51 SER SER A . n A 1 53 GLU 53 52 52 GLU GLU A . n A 1 54 GLN 54 53 53 GLN GLN A . n A 1 55 ALA 55 54 54 ALA ALA A . n A 1 56 LEU 56 55 55 LEU LEU A . n A 1 57 SER 57 56 56 SER SER A . n A 1 58 LEU 58 57 57 LEU LEU A . n A 1 59 PHE 59 58 58 PHE PHE A . n A 1 60 GLU 60 59 59 GLU GLU A . n A 1 61 GLN 61 60 60 GLN GLN A . n A 1 62 PHE 62 61 61 PHE PHE A . n A 1 63 ARG 63 62 62 ARG ARG A . n A 1 64 PHE 64 63 63 PHE PHE A . n A 1 65 ASP 65 64 64 ASP ASP A . n A 1 66 ILE 66 65 65 ILE ILE A . n A 1 67 GLU 67 66 66 GLU GLU A . n A 1 68 GLU 68 67 67 GLU GLU A . n A 1 69 GLN 69 68 68 GLN GLN A . n A 1 70 ALA 70 69 69 ALA ALA A . n A 1 71 GLU 71 70 70 GLU GLU A . n A 1 72 LYS 72 71 71 LYS LYS A . n A 1 73 LEU 73 72 72 LEU LEU A . n A 1 74 ILE 74 73 73 ILE ILE A . n A 1 75 GLU 75 74 74 GLU GLU A . n A 1 76 GLN 76 75 75 GLN GLN A . n A 1 77 GLU 77 76 76 GLU GLU A . n A 1 78 ALA 78 77 77 ALA ALA A . n A 1 79 PHE 79 78 78 PHE PHE A . n A 1 80 ASP 80 79 79 ASP ASP A . n A 1 81 VAL 81 80 80 VAL VAL A . n A 1 82 GLN 82 81 81 GLN GLN A . n A 1 83 GLY 83 82 82 GLY GLY A . n A 1 84 HIS 84 83 83 HIS HIS A . n A 1 85 ILE 85 84 84 ILE ILE A . n A 1 86 GLN 86 85 85 GLN GLN A . n A 1 87 VAL 87 86 86 VAL VAL A . n A 1 88 GLU 88 87 87 GLU GLU A . n A 1 89 ARG 89 88 88 ARG ARG A . n A 1 90 VAL 90 89 89 VAL VAL A . n A 1 91 ASP 91 90 90 ASP ASP A . n # _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 EDO 1 91 1 EDO EDO A . C 3 HOH 1 92 2 HOH HOH A . C 3 HOH 2 93 3 HOH HOH A . C 3 HOH 3 94 4 HOH HOH A . C 3 HOH 4 95 5 HOH HOH A . C 3 HOH 5 96 6 HOH HOH A . C 3 HOH 6 97 7 HOH HOH A . C 3 HOH 7 98 8 HOH HOH A . C 3 HOH 8 99 9 HOH HOH A . C 3 HOH 9 100 10 HOH HOH A . C 3 HOH 10 101 11 HOH HOH A . C 3 HOH 11 102 12 HOH HOH A . C 3 HOH 12 103 13 HOH HOH A . C 3 HOH 13 104 14 HOH HOH A . C 3 HOH 14 105 15 HOH HOH A . C 3 HOH 15 106 16 HOH HOH A . C 3 HOH 16 107 17 HOH HOH A . C 3 HOH 17 108 18 HOH HOH A . C 3 HOH 18 109 19 HOH HOH A . C 3 HOH 19 110 20 HOH HOH A . C 3 HOH 20 111 21 HOH HOH A . C 3 HOH 21 112 22 HOH HOH A . C 3 HOH 22 113 23 HOH HOH A . C 3 HOH 23 114 24 HOH HOH A . C 3 HOH 24 115 25 HOH HOH A . C 3 HOH 25 116 26 HOH HOH A . C 3 HOH 26 117 27 HOH HOH A . C 3 HOH 27 118 28 HOH HOH A . C 3 HOH 28 119 29 HOH HOH A . C 3 HOH 29 120 30 HOH HOH A . C 3 HOH 30 121 31 HOH HOH A . C 3 HOH 31 122 32 HOH HOH A . C 3 HOH 32 123 33 HOH HOH A . C 3 HOH 33 124 34 HOH HOH A . C 3 HOH 34 125 35 HOH HOH A . C 3 HOH 35 126 36 HOH HOH A . C 3 HOH 36 127 37 HOH HOH A . C 3 HOH 37 128 38 HOH HOH A . C 3 HOH 38 129 39 HOH HOH A . C 3 HOH 39 130 40 HOH HOH A . C 3 HOH 40 131 41 HOH HOH A . C 3 HOH 41 132 42 HOH HOH A . C 3 HOH 42 133 43 HOH HOH A . C 3 HOH 43 134 44 HOH HOH A . C 3 HOH 44 135 45 HOH HOH A . C 3 HOH 45 136 46 HOH HOH A . C 3 HOH 46 137 47 HOH HOH A . C 3 HOH 47 138 48 HOH HOH A . C 3 HOH 48 139 49 HOH HOH A . C 3 HOH 49 140 50 HOH HOH A . C 3 HOH 50 141 51 HOH HOH A . C 3 HOH 51 142 52 HOH HOH A . C 3 HOH 52 143 53 HOH HOH A . C 3 HOH 53 144 54 HOH HOH A . C 3 HOH 54 145 55 HOH HOH A . C 3 HOH 55 146 56 HOH HOH A . C 3 HOH 56 147 57 HOH HOH A . C 3 HOH 57 148 58 HOH HOH A . C 3 HOH 58 149 59 HOH HOH A . C 3 HOH 59 150 60 HOH HOH A . C 3 HOH 60 151 61 HOH HOH A . C 3 HOH 61 152 62 HOH HOH A . C 3 HOH 62 153 63 HOH HOH A . C 3 HOH 63 154 64 HOH HOH A . C 3 HOH 64 155 65 HOH HOH A . C 3 HOH 65 156 66 HOH HOH A . C 3 HOH 66 157 67 HOH HOH A . C 3 HOH 67 158 68 HOH HOH A . C 3 HOH 68 159 69 HOH HOH A . C 3 HOH 69 160 70 HOH HOH A . C 3 HOH 70 161 71 HOH HOH A . C 3 HOH 71 162 72 HOH HOH A . C 3 HOH 72 163 73 HOH HOH A . C 3 HOH 73 164 74 HOH HOH A . C 3 HOH 74 165 75 HOH HOH A . C 3 HOH 75 166 76 HOH HOH A . C 3 HOH 76 167 77 HOH HOH A . C 3 HOH 77 168 78 HOH HOH A . C 3 HOH 78 169 79 HOH HOH A . C 3 HOH 79 170 80 HOH HOH A . C 3 HOH 80 171 81 HOH HOH A . C 3 HOH 81 172 82 HOH HOH A . C 3 HOH 82 173 83 HOH HOH A . C 3 HOH 83 174 84 HOH HOH A . C 3 HOH 84 175 85 HOH HOH A . C 3 HOH 85 176 86 HOH HOH A . C 3 HOH 86 177 87 HOH HOH A . C 3 HOH 87 178 88 HOH HOH A . C 3 HOH 88 179 89 HOH HOH A . C 3 HOH 89 180 90 HOH HOH A . C 3 HOH 90 181 91 HOH HOH A . C 3 HOH 91 182 92 HOH HOH A . C 3 HOH 92 183 93 HOH HOH A . C 3 HOH 93 184 94 HOH HOH A . C 3 HOH 94 185 95 HOH HOH A . C 3 HOH 95 186 96 HOH HOH A . C 3 HOH 96 187 97 HOH HOH A . C 3 HOH 97 188 98 HOH HOH A . C 3 HOH 98 189 99 HOH HOH A . C 3 HOH 99 190 100 HOH HOH A . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 2 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 30 A MSE 29 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2006-06-13 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-01-25 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' Advisory 3 3 'Structure model' 'Source and taxonomy' 4 3 'Structure model' 'Version format compliance' 5 4 'Structure model' 'Database references' 6 4 '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' database_2 2 4 'Structure model' struct_conn 3 4 'Structure model' struct_ref_seq_dif 4 4 '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' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 4 'Structure model' '_struct_ref_seq_dif.details' 5 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.pdbx_refine_id 1 ? refined -1.2095 22.1484 24.2315 -0.0424 -0.0203 -0.0337 0.0057 0.0035 0.0129 1.1980 0.8027 2.8616 0.2802 -0.8601 -0.0608 0.0100 -0.0458 0.0358 -0.0363 -0.1031 -0.0263 -0.0044 0.0913 0.0993 'X-RAY DIFFRACTION' 2 ? refined -6.1594 28.8806 25.3264 -0.0343 -0.0363 -0.0383 -0.0001 0.0138 0.0046 1.2486 0.7658 0.8387 0.0802 0.1068 -0.2204 0.0044 -0.0056 0.0012 0.0169 0.0167 0.0658 0.0688 -0.0085 0.0049 'X-RAY DIFFRACTION' 3 ? refined 6.3925 27.7204 26.6934 -0.0374 -0.0084 -0.0121 -0.0094 -0.0178 0.0036 1.7121 1.3316 1.9816 -0.8547 0.4390 -0.7937 -0.0222 -0.1165 0.1387 -0.0559 0.0759 -0.1846 0.0913 -0.0465 0.1995 '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 1 A 25 ALL A 0 A 24 'X-RAY DIFFRACTION' ? 2 2 A 26 A 66 ALL A 25 A 65 'X-RAY DIFFRACTION' ? 3 3 A 67 A 91 ALL A 66 A 90 '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 5.2.0019 ? ? 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran ? 1 XSCALE . ? ? 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/xscale_program.html ? ? 2 PDB_EXTRACT 1.701 'Nov. 1, 2005' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 3 XDS . ? ? ? ? 'data reduction' ? ? ? 4 SHELXD . ? ? ? ? phasing ? ? ? 5 autoSHARP . ? ? ? ? phasing ? ? ? 6 # _pdbx_database_remark.id 999 _pdbx_database_remark.text ;SEQUENCE 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. ; # 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 38 ? NZ ? A LYS 39 NZ 2 1 Y 1 A LYS 71 ? NZ ? A LYS 72 NZ 3 1 Y 1 A ARG 88 ? CD ? A ARG 89 CD 4 1 Y 1 A ARG 88 ? NE ? A ARG 89 NE 5 1 Y 1 A ARG 88 ? CZ ? A ARG 89 CZ 6 1 Y 1 A ARG 88 ? NH1 ? A ARG 89 NH1 7 1 Y 1 A ARG 88 ? NH2 ? A ARG 89 NH2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 water HOH #