data_3FH1 # _entry.id 3FH1 # _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 3FH1 pdb_00003fh1 10.2210/pdb3fh1/pdb RCSB RCSB050580 ? ? WWPDB D_1000050580 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 390988 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3FH1 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2008-12-08 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal structure of NTF2-like protein of unknown function (NP_108339.1) from MESORHIZOBIUM LOTI 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 3FH1 _cell.length_a 45.110 _cell.length_b 45.110 _cell.length_c 136.600 _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 3FH1 _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 'uncharacterized NTF2-like protein' 14706.773 1 ? ? ? ? 2 non-polymer syn 'UNKNOWN LIGAND' ? 1 ? ? ? ? 3 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 4 non-polymer syn 1,2-ETHANEDIOL 62.068 1 ? ? ? ? 5 water nat water 18.015 111 ? ? ? ? # _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)KQDSIITLHPDDRSEQTAEI(MSE)RRFNDVFQLHDPAALPELIAEECVIENTVPAPDGARHAGRQACVQLWSA IATQPGTRFDLEETFVAGDRATIRWRYW(MSE)ADGNSVRGVNL(MSE)RVQDGRIVEA(MSE)GYVKG ; _entity_poly.pdbx_seq_one_letter_code_can ;GMKQDSIITLHPDDRSEQTAEIMRRFNDVFQLHDPAALPELIAEECVIENTVPAPDGARHAGRQACVQLWSAIATQPGTR FDLEETFVAGDRATIRWRYWMADGNSVRGVNLMRVQDGRIVEAMGYVKG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 390988 # 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 LYS n 1 4 GLN n 1 5 ASP n 1 6 SER n 1 7 ILE n 1 8 ILE n 1 9 THR n 1 10 LEU n 1 11 HIS n 1 12 PRO n 1 13 ASP n 1 14 ASP n 1 15 ARG n 1 16 SER n 1 17 GLU n 1 18 GLN n 1 19 THR n 1 20 ALA n 1 21 GLU n 1 22 ILE n 1 23 MSE n 1 24 ARG n 1 25 ARG n 1 26 PHE n 1 27 ASN n 1 28 ASP n 1 29 VAL n 1 30 PHE n 1 31 GLN n 1 32 LEU n 1 33 HIS n 1 34 ASP n 1 35 PRO n 1 36 ALA n 1 37 ALA n 1 38 LEU n 1 39 PRO n 1 40 GLU n 1 41 LEU n 1 42 ILE n 1 43 ALA n 1 44 GLU n 1 45 GLU n 1 46 CYS n 1 47 VAL n 1 48 ILE n 1 49 GLU n 1 50 ASN n 1 51 THR n 1 52 VAL n 1 53 PRO n 1 54 ALA n 1 55 PRO n 1 56 ASP n 1 57 GLY n 1 58 ALA n 1 59 ARG n 1 60 HIS n 1 61 ALA n 1 62 GLY n 1 63 ARG n 1 64 GLN n 1 65 ALA n 1 66 CYS n 1 67 VAL n 1 68 GLN n 1 69 LEU n 1 70 TRP n 1 71 SER n 1 72 ALA n 1 73 ILE n 1 74 ALA n 1 75 THR n 1 76 GLN n 1 77 PRO n 1 78 GLY n 1 79 THR n 1 80 ARG n 1 81 PHE n 1 82 ASP n 1 83 LEU n 1 84 GLU n 1 85 GLU n 1 86 THR n 1 87 PHE n 1 88 VAL n 1 89 ALA n 1 90 GLY n 1 91 ASP n 1 92 ARG n 1 93 ALA n 1 94 THR n 1 95 ILE n 1 96 ARG n 1 97 TRP n 1 98 ARG n 1 99 TYR n 1 100 TRP n 1 101 MSE n 1 102 ALA n 1 103 ASP n 1 104 GLY n 1 105 ASN n 1 106 SER n 1 107 VAL n 1 108 ARG n 1 109 GLY n 1 110 VAL n 1 111 ASN n 1 112 LEU n 1 113 MSE n 1 114 ARG n 1 115 VAL n 1 116 GLN n 1 117 ASP n 1 118 GLY n 1 119 ARG n 1 120 ILE n 1 121 VAL n 1 122 GLU n 1 123 ALA n 1 124 MSE n 1 125 GLY n 1 126 TYR n 1 127 VAL n 1 128 LYS n 1 129 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 'Mesorhizobium loti' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'mll8193, NP_108339.1' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Mesorhizobium loti' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 381 _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 ? _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.db_name UNP _struct_ref.db_code Q983T0_RHILO _struct_ref.pdbx_db_accession Q983T0 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKQDSIITLHPDDRSEQTAEIMRRFNDVFQLHDPAALPELIAEECVIENTVPAPDGARHAGRQACVQLWSAIATQPGTRF DLEETFVAGDRATIRWRYWMADGNSVRGVNLMRVQDGRIVEAMGYVKG ; _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 3FH1 _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 129 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q983T0 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 128 _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 128 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3FH1 _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code Q983T0 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 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 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 UNL non-polymer . 'UNKNOWN LIGAND' ? ? ? VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 3FH1 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.36 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 47.94 _exptl_crystal.description 'DATA WERE SCALED USING XSCALE WITH FRIEDEL PAIRS KEPT AS SEPARATE WHEN COMPUTING R-SYM, COMPLETENESS AND .' _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 5.0 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '0.2000M (NH4)2HCitrate, 20.0000% PEG-3350, No Buffer pH 5.0, NANODROP, 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 'MARMOSAIC 300 mm CCD' _diffrn_detector.details 'Adjustable focusing mirrors in K-B geometry' _diffrn_detector.pdbx_collection_date 2008-10-11 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111) Double Crystal Monochrometer' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.94645 1.0 2 0.97965 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 23-ID-B _diffrn_source.type 'APS BEAMLINE 23-ID-B' _diffrn_source.pdbx_wavelength_list 0.94645,0.97965 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS # _reflns.entry_id 3FH1 _reflns.d_resolution_high 1.60 _reflns.d_resolution_low 28.904 _reflns.number_obs 19510 _reflns.pdbx_Rmerge_I_obs 0.063 _reflns.percent_possible_obs 99.600 _reflns.B_iso_Wilson_estimate 20.689 _reflns.observed_criterion_sigma_I -3.00 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 13.650 _reflns.pdbx_redundancy 6.94 _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 1.60 1.66 13683 ? 3655 1.036 1.45 ? ? ? ? ? 98.00 1 1 1.66 1.72 12033 ? 3187 0.771 1.92 ? ? ? ? ? 99.30 2 1 1.72 1.80 13852 ? 3656 0.546 2.7 ? ? ? ? ? 99.60 3 1 1.80 1.90 14116 ? 3715 0.324 4.4 ? ? ? ? ? 99.80 4 1 1.90 2.02 13582 ? 3566 0.198 7.0 ? ? ? ? ? 99.90 5 1 2.02 2.17 12966 ? 3391 0.125 10.6 ? ? ? ? ? 99.90 6 1 2.17 2.39 13879 ? 3621 0.088 14.4 ? ? ? ? ? 100.00 7 1 2.39 2.73 13486 ? 3502 0.064 19.1 ? ? ? ? ? 100.00 8 1 2.73 3.44 13820 ? 3584 0.035 30.7 ? ? ? ? ? 99.90 9 1 3.44 28.904 13963 ? 3605 0.023 43.5 ? ? ? ? ? 99.60 10 1 # _refine.entry_id 3FH1 _refine.ls_d_res_high 1.600 _refine.ls_d_res_low 28.904 _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.700 _refine.ls_number_reflns_obs 19433 _refine.ls_number_reflns_all ? _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 RECORD CONTAINS 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 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. A CHLORIDE ION, FROM THE PROTEIN BUFFER, AND AN ETHYLENE GLYCOL MOLECULE, FROM THE CRYOPROTECTANT, WERE MODELED IN THE STRUCTURE. 5.ONE UNKNOWN LIGAND IS MODELED NEAR TO RESIDUE 69 AND 96. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.169 _refine.ls_R_factor_R_work 0.167 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.200 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 990 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 27.375 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.690 _refine.aniso_B[2][2] 0.690 _refine.aniso_B[3][3] -1.390 _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 0.968 _refine.correlation_coeff_Fo_to_Fc_free 0.958 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R 0.080 _refine.pdbx_overall_ESU_R_Free 0.083 _refine.overall_SU_ML 0.056 _refine.overall_SU_B 3.281 _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.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 63.81 _refine.B_iso_min 15.16 _refine.occupancy_max 1.00 _refine.occupancy_min 0.30 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _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 956 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 11 _refine_hist.number_atoms_solvent 111 _refine_hist.number_atoms_total 1078 _refine_hist.d_res_high 1.600 _refine_hist.d_res_low 28.904 # loop_ _refine_ls_restr.type _refine_ls_restr.pdbx_refine_id _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 'X-RAY DIFFRACTION' 1101 0.018 0.022 ? ? r_bond_other_d 'X-RAY DIFFRACTION' 755 0.002 0.020 ? ? r_angle_refined_deg 'X-RAY DIFFRACTION' 1511 1.596 1.937 ? ? r_angle_other_deg 'X-RAY DIFFRACTION' 1819 0.936 3.000 ? ? r_dihedral_angle_1_deg 'X-RAY DIFFRACTION' 146 5.746 5.000 ? ? r_dihedral_angle_2_deg 'X-RAY DIFFRACTION' 58 32.553 22.759 ? ? r_dihedral_angle_3_deg 'X-RAY DIFFRACTION' 179 11.774 15.000 ? ? r_dihedral_angle_4_deg 'X-RAY DIFFRACTION' 15 16.245 15.000 ? ? r_chiral_restr 'X-RAY DIFFRACTION' 159 0.099 0.200 ? ? r_gen_planes_refined 'X-RAY DIFFRACTION' 1324 0.008 0.020 ? ? r_gen_planes_other 'X-RAY DIFFRACTION' 248 0.003 0.020 ? ? r_nbd_refined 'X-RAY DIFFRACTION' 207 0.227 0.300 ? ? r_nbd_other 'X-RAY DIFFRACTION' 815 0.222 0.300 ? ? r_nbtor_refined 'X-RAY DIFFRACTION' 536 0.177 0.500 ? ? r_nbtor_other 'X-RAY DIFFRACTION' 639 0.088 0.500 ? ? r_xyhbond_nbd_refined 'X-RAY DIFFRACTION' 178 0.247 0.500 ? ? r_symmetry_vdw_refined 'X-RAY DIFFRACTION' 13 0.333 0.300 ? ? r_symmetry_vdw_other 'X-RAY DIFFRACTION' 53 0.380 0.300 ? ? r_symmetry_hbond_refined 'X-RAY DIFFRACTION' 34 0.165 0.500 ? ? r_mcbond_it 'X-RAY DIFFRACTION' 829 2.334 3.000 ? ? r_mcbond_other 'X-RAY DIFFRACTION' 272 0.527 3.000 ? ? r_mcangle_it 'X-RAY DIFFRACTION' 1115 2.742 5.000 ? ? r_scbond_it 'X-RAY DIFFRACTION' 460 4.443 8.000 ? ? r_scangle_it 'X-RAY DIFFRACTION' 396 6.392 11.000 ? ? # _refine_ls_shell.d_res_high 1.600 _refine_ls_shell.d_res_low 1.641 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 97.970 _refine_ls_shell.number_reflns_R_work 1285 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.236 _refine_ls_shell.R_factor_R_free 0.294 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 69 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1354 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3FH1 _struct.title 'Crystal structure of a ntf2-like protein of unknown function (mll8193) from mesorhizobium loti at 1.60 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text 'Structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, unknown function' _struct_keywords.pdbx_keywords 'UNKNOWN FUNCTION' _struct_keywords.entry_id 3FH1 # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 5 ? # _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 ARG A 15 ? LEU A 32 ? ARG A 14 LEU A 31 1 ? 18 HELX_P HELX_P2 2 ASP A 34 ? ALA A 36 ? ASP A 33 ALA A 35 5 ? 3 HELX_P HELX_P3 3 ALA A 37 ? LEU A 41 ? ALA A 36 LEU A 40 1 ? 5 HELX_P HELX_P4 4 GLY A 62 ? GLN A 76 ? GLY 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 ILE 22 C ? ? ? 1_555 A MSE 23 N ? ? A ILE 21 A MSE 22 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale2 covale both ? A MSE 23 C ? ? ? 1_555 A ARG 24 N A ? A MSE 22 A ARG 23 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale3 covale both ? A MSE 23 C ? ? ? 1_555 A ARG 24 N B ? A MSE 22 A ARG 23 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale4 covale both ? A TRP 100 C ? ? ? 1_555 A MSE 101 N ? ? A TRP 99 A MSE 100 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale5 covale both ? A MSE 101 C ? ? ? 1_555 A ALA 102 N ? ? A MSE 100 A ALA 101 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale6 covale both ? A LEU 112 C A ? ? 1_555 A MSE 113 N ? ? A LEU 111 A MSE 112 1_555 ? ? ? ? ? ? ? 1.315 ? ? covale7 covale both ? A LEU 112 C B ? ? 1_555 A MSE 113 N ? ? A LEU 111 A MSE 112 1_555 ? ? ? ? ? ? ? 1.344 ? ? covale8 covale both ? A MSE 113 C ? ? ? 1_555 A ARG 114 N ? ? A MSE 112 A ARG 113 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale9 covale both ? A ALA 123 C ? ? ? 1_555 A MSE 124 N A ? A ALA 122 A MSE 123 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale10 covale both ? A ALA 123 C ? ? ? 1_555 A MSE 124 N B ? A ALA 122 A MSE 123 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale11 covale both ? A MSE 124 C A ? ? 1_555 A GLY 125 N ? ? A MSE 123 A GLY 124 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale12 covale both ? A MSE 124 C B ? ? 1_555 A GLY 125 N ? ? A MSE 123 A GLY 124 1_555 ? ? ? ? ? ? ? 1.323 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 VAL 52 A . ? VAL 51 A PRO 53 A ? PRO 52 A 1 -5.35 2 ALA 54 A . ? ALA 53 A PRO 55 A ? PRO 54 A 1 3.20 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 7 _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 ? parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? parallel A 6 7 ? 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 9 ? HIS A 11 ? THR A 8 HIS A 10 A 2 ARG A 80 ? ALA A 89 ? ARG A 79 ALA A 88 A 3 ARG A 92 ? TRP A 100 ? ARG A 91 TRP A 99 A 4 SER A 106 ? GLN A 116 ? SER A 105 GLN A 115 A 5 ARG A 119 ? VAL A 127 ? ARG A 118 VAL A 126 A 6 ILE A 42 ? GLU A 49 ? ILE A 41 GLU A 48 A 7 ARG A 59 ? ALA A 61 ? ARG A 58 ALA A 60 # 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 THR A 9 ? N THR A 8 O THR A 86 ? O THR A 85 A 2 3 N GLU A 85 ? N GLU A 84 O ARG A 96 ? O ARG A 95 A 3 4 N ALA A 93 ? N ALA A 92 O MSE A 113 ? O MSE A 112 A 4 5 N GLN A 116 ? N GLN A 115 O ARG A 119 ? O ARG A 118 A 5 6 O GLY A 125 ? O GLY A 124 N GLU A 49 ? N GLU A 48 A 6 7 N ILE A 48 ? N ILE A 47 O HIS A 60 ? O HIS A 59 # 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 UNL 129 ? 5 'BINDING SITE FOR RESIDUE UNL A 129' AC2 Software A CL 130 ? 4 'BINDING SITE FOR RESIDUE CL A 130' AC3 Software A EDO 131 ? 7 'BINDING SITE FOR RESIDUE EDO A 131' # 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 5 ASN A 27 ? ASN A 26 . ? 1_555 ? 2 AC1 5 ASN A 50 ? ASN A 49 . ? 1_555 ? 3 AC1 5 TRP A 70 ? TRP A 69 . ? 1_555 ? 4 AC1 5 ASN A 111 ? ASN A 110 . ? 1_555 ? 5 AC1 5 HOH E . ? HOH A 173 . ? 1_555 ? 6 AC2 4 GLU A 84 ? GLU A 83 . ? 1_555 ? 7 AC2 4 ARG A 98 ? ARG A 97 . ? 1_555 ? 8 AC2 4 HOH E . ? HOH A 179 . ? 1_555 ? 9 AC2 4 HOH E . ? HOH A 201 . ? 1_555 ? 10 AC3 7 PRO A 39 ? PRO A 38 . ? 1_555 ? 11 AC3 7 GLU A 40 ? GLU A 39 . ? 1_555 ? 12 AC3 7 ILE A 42 ? ILE A 41 . ? 1_555 ? 13 AC3 7 ARG A 63 ? ARG A 62 . ? 1_555 ? 14 AC3 7 ARG A 119 ? ARG A 118 . ? 1_555 ? 15 AC3 7 HOH E . ? HOH A 162 . ? 1_555 ? 16 AC3 7 HOH E . ? HOH A 194 . ? 1_555 ? # _atom_sites.entry_id 3FH1 _atom_sites.fract_transf_matrix[1][1] 0.022168 _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] 0.022168 _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] 0.007321 _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 CL 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 LYS 3 2 ? ? ? A . n A 1 4 GLN 4 3 ? ? ? A . n A 1 5 ASP 5 4 ? ? ? A . n A 1 6 SER 6 5 ? ? ? A . n A 1 7 ILE 7 6 ? ? ? A . n A 1 8 ILE 8 7 7 ILE ILE A . n A 1 9 THR 9 8 8 THR THR A . n A 1 10 LEU 10 9 9 LEU LEU A . n A 1 11 HIS 11 10 10 HIS HIS A . n A 1 12 PRO 12 11 11 PRO PRO A . n A 1 13 ASP 13 12 12 ASP ASP A . n A 1 14 ASP 14 13 13 ASP ASP A . n A 1 15 ARG 15 14 14 ARG ARG A . n A 1 16 SER 16 15 15 SER SER A . n A 1 17 GLU 17 16 16 GLU GLU A . n A 1 18 GLN 18 17 17 GLN GLN A . n A 1 19 THR 19 18 18 THR THR A . n A 1 20 ALA 20 19 19 ALA ALA A . n A 1 21 GLU 21 20 20 GLU GLU A . n A 1 22 ILE 22 21 21 ILE ILE A . n A 1 23 MSE 23 22 22 MSE MSE A . n A 1 24 ARG 24 23 23 ARG ARG A . n A 1 25 ARG 25 24 24 ARG ARG A . n A 1 26 PHE 26 25 25 PHE PHE A . n A 1 27 ASN 27 26 26 ASN ASN A . n A 1 28 ASP 28 27 27 ASP ASP A . n A 1 29 VAL 29 28 28 VAL VAL A . n A 1 30 PHE 30 29 29 PHE PHE A . n A 1 31 GLN 31 30 30 GLN GLN A . n A 1 32 LEU 32 31 31 LEU LEU A . n A 1 33 HIS 33 32 32 HIS HIS A . n A 1 34 ASP 34 33 33 ASP ASP A . n A 1 35 PRO 35 34 34 PRO PRO A . n A 1 36 ALA 36 35 35 ALA ALA A . n A 1 37 ALA 37 36 36 ALA ALA A . n A 1 38 LEU 38 37 37 LEU LEU A . n A 1 39 PRO 39 38 38 PRO PRO A . n A 1 40 GLU 40 39 39 GLU GLU A . n A 1 41 LEU 41 40 40 LEU LEU A . n A 1 42 ILE 42 41 41 ILE ILE A . n A 1 43 ALA 43 42 42 ALA ALA A . n A 1 44 GLU 44 43 43 GLU GLU A . n A 1 45 GLU 45 44 44 GLU GLU A . n A 1 46 CYS 46 45 45 CYS CYS A . n A 1 47 VAL 47 46 46 VAL VAL A . n A 1 48 ILE 48 47 47 ILE ILE A . n A 1 49 GLU 49 48 48 GLU GLU A . n A 1 50 ASN 50 49 49 ASN ASN A . n A 1 51 THR 51 50 50 THR THR A . n A 1 52 VAL 52 51 51 VAL VAL A . n A 1 53 PRO 53 52 52 PRO PRO A . n A 1 54 ALA 54 53 53 ALA ALA A . n A 1 55 PRO 55 54 54 PRO PRO A . n A 1 56 ASP 56 55 55 ASP ASP A . n A 1 57 GLY 57 56 56 GLY GLY A . n A 1 58 ALA 58 57 57 ALA ALA A . n A 1 59 ARG 59 58 58 ARG ARG A . n A 1 60 HIS 60 59 59 HIS HIS A . n A 1 61 ALA 61 60 60 ALA ALA A . n A 1 62 GLY 62 61 61 GLY GLY A . n A 1 63 ARG 63 62 62 ARG ARG A . n A 1 64 GLN 64 63 63 GLN GLN A . n A 1 65 ALA 65 64 64 ALA ALA A . n A 1 66 CYS 66 65 65 CYS CYS A . n A 1 67 VAL 67 66 66 VAL VAL A . n A 1 68 GLN 68 67 67 GLN GLN A . n A 1 69 LEU 69 68 68 LEU LEU A . n A 1 70 TRP 70 69 69 TRP TRP A . n A 1 71 SER 71 70 70 SER SER A . n A 1 72 ALA 72 71 71 ALA ALA A . n A 1 73 ILE 73 72 72 ILE ILE A . n A 1 74 ALA 74 73 73 ALA ALA A . n A 1 75 THR 75 74 74 THR THR A . n A 1 76 GLN 76 75 75 GLN GLN A . n A 1 77 PRO 77 76 76 PRO PRO A . n A 1 78 GLY 78 77 77 GLY GLY A . n A 1 79 THR 79 78 78 THR THR A . n A 1 80 ARG 80 79 79 ARG ARG A . n A 1 81 PHE 81 80 80 PHE PHE A . n A 1 82 ASP 82 81 81 ASP ASP A . n A 1 83 LEU 83 82 82 LEU LEU A . n A 1 84 GLU 84 83 83 GLU GLU A . n A 1 85 GLU 85 84 84 GLU GLU A . n A 1 86 THR 86 85 85 THR THR A . n A 1 87 PHE 87 86 86 PHE PHE A . n A 1 88 VAL 88 87 87 VAL VAL A . n A 1 89 ALA 89 88 88 ALA ALA A . n A 1 90 GLY 90 89 89 GLY GLY A . n A 1 91 ASP 91 90 90 ASP ASP A . n A 1 92 ARG 92 91 91 ARG ARG A . n A 1 93 ALA 93 92 92 ALA ALA A . n A 1 94 THR 94 93 93 THR THR A . n A 1 95 ILE 95 94 94 ILE ILE A . n A 1 96 ARG 96 95 95 ARG ARG A . n A 1 97 TRP 97 96 96 TRP TRP A . n A 1 98 ARG 98 97 97 ARG ARG A . n A 1 99 TYR 99 98 98 TYR TYR A . n A 1 100 TRP 100 99 99 TRP TRP A . n A 1 101 MSE 101 100 100 MSE MSE A . n A 1 102 ALA 102 101 101 ALA ALA A . n A 1 103 ASP 103 102 102 ASP ASP A . n A 1 104 GLY 104 103 103 GLY GLY A . n A 1 105 ASN 105 104 104 ASN ASN A . n A 1 106 SER 106 105 105 SER SER A . n A 1 107 VAL 107 106 106 VAL VAL A . n A 1 108 ARG 108 107 107 ARG ARG A . n A 1 109 GLY 109 108 108 GLY GLY A . n A 1 110 VAL 110 109 109 VAL VAL A . n A 1 111 ASN 111 110 110 ASN ASN A . n A 1 112 LEU 112 111 111 LEU LEU A . n A 1 113 MSE 113 112 112 MSE MSE A . n A 1 114 ARG 114 113 113 ARG ARG A . n A 1 115 VAL 115 114 114 VAL VAL A . n A 1 116 GLN 116 115 115 GLN GLN A . n A 1 117 ASP 117 116 116 ASP ASP A . n A 1 118 GLY 118 117 117 GLY GLY A . n A 1 119 ARG 119 118 118 ARG ARG A . n A 1 120 ILE 120 119 119 ILE ILE A . n A 1 121 VAL 121 120 120 VAL VAL A . n A 1 122 GLU 122 121 121 GLU GLU A . n A 1 123 ALA 123 122 122 ALA ALA A . n A 1 124 MSE 124 123 123 MSE MSE A . n A 1 125 GLY 125 124 124 GLY GLY A . n A 1 126 TYR 126 125 125 TYR TYR A . n A 1 127 VAL 127 126 126 VAL VAL A . n A 1 128 LYS 128 127 127 LYS LYS A . n A 1 129 GLY 129 128 128 GLY GLY 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 UNL 1 129 1 UNL UNL A . C 3 CL 1 130 2 CL CL A . D 4 EDO 1 131 3 EDO EDO A . E 5 HOH 1 132 4 HOH HOH A . E 5 HOH 2 133 5 HOH HOH A . E 5 HOH 3 134 6 HOH HOH A . E 5 HOH 4 135 7 HOH HOH A . E 5 HOH 5 136 8 HOH HOH A . E 5 HOH 6 137 9 HOH HOH A . E 5 HOH 7 138 10 HOH HOH A . E 5 HOH 8 139 11 HOH HOH A . E 5 HOH 9 140 12 HOH HOH A . E 5 HOH 10 141 13 HOH HOH A . E 5 HOH 11 142 14 HOH HOH A . E 5 HOH 12 143 15 HOH HOH A . E 5 HOH 13 144 16 HOH HOH A . E 5 HOH 14 145 17 HOH HOH A . E 5 HOH 15 146 18 HOH HOH A . E 5 HOH 16 147 19 HOH HOH A . E 5 HOH 17 148 20 HOH HOH A . E 5 HOH 18 149 21 HOH HOH A . E 5 HOH 19 150 22 HOH HOH A . E 5 HOH 20 151 23 HOH HOH A . E 5 HOH 21 152 24 HOH HOH A . E 5 HOH 22 153 25 HOH HOH A . E 5 HOH 23 154 26 HOH HOH A . E 5 HOH 24 155 27 HOH HOH A . E 5 HOH 25 156 28 HOH HOH A . E 5 HOH 26 157 29 HOH HOH A . E 5 HOH 27 158 30 HOH HOH A . E 5 HOH 28 159 31 HOH HOH A . E 5 HOH 29 160 32 HOH HOH A . E 5 HOH 30 161 33 HOH HOH A . E 5 HOH 31 162 34 HOH HOH A . E 5 HOH 32 163 35 HOH HOH A . E 5 HOH 33 164 36 HOH HOH A . E 5 HOH 34 165 37 HOH HOH A . E 5 HOH 35 166 38 HOH HOH A . E 5 HOH 36 167 39 HOH HOH A . E 5 HOH 37 168 40 HOH HOH A . E 5 HOH 38 169 41 HOH HOH A . E 5 HOH 39 170 42 HOH HOH A . E 5 HOH 40 171 43 HOH HOH A . E 5 HOH 41 172 44 HOH HOH A . E 5 HOH 42 173 45 HOH HOH A . E 5 HOH 43 174 46 HOH HOH A . E 5 HOH 44 175 47 HOH HOH A . E 5 HOH 45 176 48 HOH HOH A . E 5 HOH 46 177 49 HOH HOH A . E 5 HOH 47 178 50 HOH HOH A . E 5 HOH 48 179 51 HOH HOH A . E 5 HOH 49 180 52 HOH HOH A . E 5 HOH 50 181 53 HOH HOH A . E 5 HOH 51 182 54 HOH HOH A . E 5 HOH 52 183 55 HOH HOH A . E 5 HOH 53 184 56 HOH HOH A . E 5 HOH 54 185 57 HOH HOH A . E 5 HOH 55 186 58 HOH HOH A . E 5 HOH 56 187 59 HOH HOH A . E 5 HOH 57 188 60 HOH HOH A . E 5 HOH 58 189 61 HOH HOH A . E 5 HOH 59 190 62 HOH HOH A . E 5 HOH 60 191 63 HOH HOH A . E 5 HOH 61 192 64 HOH HOH A . E 5 HOH 62 193 65 HOH HOH A . E 5 HOH 63 194 66 HOH HOH A . E 5 HOH 64 195 67 HOH HOH A . E 5 HOH 65 196 68 HOH HOH A . E 5 HOH 66 197 69 HOH HOH A . E 5 HOH 67 198 70 HOH HOH A . E 5 HOH 68 199 71 HOH HOH A . E 5 HOH 69 200 72 HOH HOH A . E 5 HOH 70 201 73 HOH HOH A . E 5 HOH 71 202 74 HOH HOH A . E 5 HOH 72 203 75 HOH HOH A . E 5 HOH 73 204 76 HOH HOH A . E 5 HOH 74 205 77 HOH HOH A . E 5 HOH 75 206 78 HOH HOH A . E 5 HOH 76 207 79 HOH HOH A . E 5 HOH 77 208 80 HOH HOH A . E 5 HOH 78 209 81 HOH HOH A . E 5 HOH 79 210 82 HOH HOH A . E 5 HOH 80 211 83 HOH HOH A . E 5 HOH 81 212 84 HOH HOH A . E 5 HOH 82 213 85 HOH HOH A . E 5 HOH 83 214 86 HOH HOH A . E 5 HOH 84 215 87 HOH HOH A . E 5 HOH 85 216 88 HOH HOH A . E 5 HOH 86 217 89 HOH HOH A . E 5 HOH 87 218 90 HOH HOH A . E 5 HOH 88 219 91 HOH HOH A . E 5 HOH 89 220 92 HOH HOH A . E 5 HOH 90 221 93 HOH HOH A . E 5 HOH 91 222 94 HOH HOH A . E 5 HOH 92 223 95 HOH HOH A . E 5 HOH 93 224 96 HOH HOH A . E 5 HOH 94 225 97 HOH HOH A . E 5 HOH 95 226 98 HOH HOH A . E 5 HOH 96 227 99 HOH HOH A . E 5 HOH 97 228 100 HOH HOH A . E 5 HOH 98 229 101 HOH HOH A . E 5 HOH 99 230 102 HOH HOH A . E 5 HOH 100 231 103 HOH HOH A . E 5 HOH 101 232 104 HOH HOH A . E 5 HOH 102 233 105 HOH HOH A . E 5 HOH 103 234 106 HOH HOH A . E 5 HOH 104 235 107 HOH HOH A . E 5 HOH 105 236 108 HOH HOH A . E 5 HOH 106 237 109 HOH HOH A . E 5 HOH 107 238 110 HOH HOH A . E 5 HOH 108 239 111 HOH HOH A . E 5 HOH 109 240 112 HOH HOH A . E 5 HOH 110 241 113 HOH HOH A . E 5 HOH 111 242 114 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 23 A MSE 22 ? MET SELENOMETHIONINE 2 A MSE 101 A MSE 100 ? MET SELENOMETHIONINE 3 A MSE 113 A MSE 112 ? MET SELENOMETHIONINE 4 A MSE 124 A MSE 123 ? 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,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)' 4020 ? 1 MORE -22 ? 1 'SSA (A^2)' 11170 ? # 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_556 y,x,-z+1 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 136.6000000000 # 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 2008-12-23 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-01 4 'Structure model' 1 3 2019-07-24 5 'Structure model' 1 4 2023-02-01 # _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' Advisory 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Refinement description' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Refinement description' 7 5 'Structure model' 'Database references' 8 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' software 2 4 'Structure model' software 3 4 'Structure model' struct_conn 4 5 'Structure model' database_2 5 5 'Structure model' struct_ref_seq_dif 6 5 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 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' 12 5 'Structure model' '_database_2.pdbx_DOI' 13 5 'Structure model' '_database_2.pdbx_database_accession' 14 5 'Structure model' '_struct_ref_seq_dif.details' 15 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 17.7558 _pdbx_refine_tls.origin_y 7.9460 _pdbx_refine_tls.origin_z 59.3469 _pdbx_refine_tls.T[1][1] -0.0303 _pdbx_refine_tls.T[2][2] -0.0373 _pdbx_refine_tls.T[3][3] -0.0211 _pdbx_refine_tls.T[1][2] 0.0188 _pdbx_refine_tls.T[1][3] 0.0196 _pdbx_refine_tls.T[2][3] 0.0047 _pdbx_refine_tls.L[1][1] 0.4468 _pdbx_refine_tls.L[2][2] 1.0947 _pdbx_refine_tls.L[3][3] 1.7863 _pdbx_refine_tls.L[1][2] 0.1727 _pdbx_refine_tls.L[1][3] 0.0952 _pdbx_refine_tls.L[2][3] 0.5327 _pdbx_refine_tls.S[1][1] -0.0031 _pdbx_refine_tls.S[2][2] -0.0168 _pdbx_refine_tls.S[3][3] 0.0199 _pdbx_refine_tls.S[1][2] 0.0348 _pdbx_refine_tls.S[1][3] -0.0376 _pdbx_refine_tls.S[2][3] -0.1118 _pdbx_refine_tls.S[2][1] -0.1098 _pdbx_refine_tls.S[3][1] 0.0992 _pdbx_refine_tls.S[3][2] 0.1256 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.beg_auth_seq_id 7 _pdbx_refine_tls_group.selection_details ? _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 128 _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 ? # _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 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SHELX . ? package 'George M. 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/html_doc/xscale_program.html ? ? 5 PDB_EXTRACT 3.006 'June 11, 2008' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 6 XDS . ? ? ? ? 'data reduction' ? ? ? 7 SHELXD . ? ? ? ? phasing ? ? ? 8 autoSHARP . ? ? ? ? phasing ? ? ? 9 # _pdbx_entry_details.entry_id 3FH1 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;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. ; _pdbx_entry_details.has_ligand_of_interest ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 NE _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ARG _pdbx_validate_rmsd_angle.auth_seq_id_1 62 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CZ _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ARG _pdbx_validate_rmsd_angle.auth_seq_id_2 62 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 NH1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ARG _pdbx_validate_rmsd_angle.auth_seq_id_3 62 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 124.04 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 3.74 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.50 _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 ALA _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 57 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id A _pdbx_validate_torsion.phi -59.54 _pdbx_validate_torsion.psi 170.05 # 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 ASP 12 ? CG ? A ASP 13 CG 2 1 Y 1 A ASP 12 ? OD1 ? A ASP 13 OD1 3 1 Y 1 A ASP 12 ? OD2 ? A ASP 13 OD2 4 1 Y 1 A ASP 13 ? CG ? A ASP 14 CG 5 1 Y 1 A ASP 13 ? OD1 ? A ASP 14 OD1 6 1 Y 1 A ASP 13 ? OD2 ? A ASP 14 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 GLY 0 ? A GLY 1 2 1 Y 1 A MSE 1 ? A MSE 2 3 1 Y 1 A LYS 2 ? A LYS 3 4 1 Y 1 A GLN 3 ? A GLN 4 5 1 Y 1 A ASP 4 ? A ASP 5 6 1 Y 1 A SER 5 ? A SER 6 7 1 Y 1 A ILE 6 ? A ILE 7 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'UNKNOWN LIGAND' UNL 3 'CHLORIDE ION' CL 4 1,2-ETHANEDIOL EDO 5 water HOH #