data_3ULH # _entry.id 3ULH # _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 3ULH pdb_00003ulh 10.2210/pdb3ulh/pdb RCSB RCSB068903 ? ? WWPDB D_1000068903 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 422757 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3ULH _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-11-10 _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.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Joint Center for Structural Genomics (JCSG)' 1 'Partnership for T-Cell Biology (TCELL)' 2 # _citation.id primary _citation.title 'Crystal structure of a RNA binding domain of THO complex subunit 4 protein (THOC4) from Homo sapiens at 2.54 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 ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Joint Center for Structural Genomics (JCSG)' 1 ? primary 'Partnership for T-Cell Biology (TCELL)' 2 ? # _cell.entry_id 3ULH _cell.length_a 101.152 _cell.length_b 101.152 _cell.length_c 101.152 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 24 _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 3ULH _symmetry.Int_Tables_number 213 _symmetry.space_group_name_H-M 'P 41 3 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 'THO complex subunit 4' 11659.740 1 ? ? 'RNA binding domain' ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 2 ? ? ? ? 3 water nat water 18.015 26 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Tho4, Ally of AML-1 and LEF-1, Transcriptional coactivator Aly/REF, bZIP-enhancing factor BEF' # _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 ;GSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERK ADALKA(MSE)KQYNGVPLDGRP(MSE)NIQLVTS ; _entity_poly.pdbx_seq_one_letter_code_can ;GSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERK ADALKAMKQYNGVPLDGRPMNIQLVTS ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 422757 # 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 SER n 1 3 ARG n 1 4 PRO n 1 5 LYS n 1 6 GLN n 1 7 LEU n 1 8 PRO n 1 9 ASP n 1 10 LYS n 1 11 TRP n 1 12 GLN n 1 13 HIS n 1 14 ASP n 1 15 LEU n 1 16 PHE n 1 17 ASP n 1 18 SER n 1 19 GLY n 1 20 PHE n 1 21 GLY n 1 22 GLY n 1 23 GLY n 1 24 ALA n 1 25 GLY n 1 26 VAL n 1 27 GLU n 1 28 THR n 1 29 GLY n 1 30 GLY n 1 31 LYS n 1 32 LEU n 1 33 LEU n 1 34 VAL n 1 35 SER n 1 36 ASN n 1 37 LEU n 1 38 ASP n 1 39 PHE n 1 40 GLY n 1 41 VAL n 1 42 SER n 1 43 ASP n 1 44 ALA n 1 45 ASP n 1 46 ILE n 1 47 GLN n 1 48 GLU n 1 49 LEU n 1 50 PHE n 1 51 ALA n 1 52 GLU n 1 53 PHE n 1 54 GLY n 1 55 THR n 1 56 LEU n 1 57 LYS n 1 58 LYS n 1 59 ALA n 1 60 ALA n 1 61 VAL n 1 62 HIS n 1 63 TYR n 1 64 ASP n 1 65 ARG n 1 66 SER n 1 67 GLY n 1 68 ARG n 1 69 SER n 1 70 LEU n 1 71 GLY n 1 72 THR n 1 73 ALA n 1 74 ASP n 1 75 VAL n 1 76 HIS n 1 77 PHE n 1 78 GLU n 1 79 ARG n 1 80 LYS n 1 81 ALA n 1 82 ASP n 1 83 ALA n 1 84 LEU n 1 85 LYS n 1 86 ALA n 1 87 MSE n 1 88 LYS n 1 89 GLN n 1 90 TYR n 1 91 ASN n 1 92 GLY n 1 93 VAL n 1 94 PRO n 1 95 LEU n 1 96 ASP n 1 97 GLY n 1 98 ARG n 1 99 PRO n 1 100 MSE n 1 101 ASN n 1 102 ILE n 1 103 GLN n 1 104 LEU n 1 105 VAL n 1 106 THR n 1 107 SER 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 human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'ALY, BC052302, BEF, THOC4' _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 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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 THOC4_HUMAN _struct_ref.pdbx_db_accession Q86V81 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKA DALKAMKQYNGVPLDGRPMNIQLVTS ; _struct_ref.pdbx_align_begin 78 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3ULH _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 107 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q86V81 _struct_ref_seq.db_align_beg 78 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 183 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 78 _struct_ref_seq.pdbx_auth_seq_align_end 183 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3ULH _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 Q86V81 _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 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 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 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 3ULH # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 3.70 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 66.74 _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 7.5 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pdbx_details ;25.0% Glycerol, 0.6M di-sodium hydrogen phosphate, 0.6M potassium dihydrogen phosphate, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K ; _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 'KOHZU: Double Crystal Si(111)' _diffrn_detector.pdbx_collection_date 2011-09-09 # _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 0.9537 1.0 2 0.9796 1.0 3 0.9794 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.type 'ALS BEAMLINE 8.2.2' _diffrn_source.pdbx_wavelength_list 0.9537,0.9796,0.9794 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ALS # _reflns.entry_id 3ULH _reflns.d_resolution_high 2.54 _reflns.d_resolution_low 29.200 _reflns.number_all 6271 _reflns.number_obs 6271 _reflns.pdbx_netI_over_sigmaI 16.600 _reflns.pdbx_Rsym_value 0.086 _reflns.pdbx_redundancy 9.800 _reflns.percent_possible_obs 99.900 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.pdbx_Rmerge_I_obs ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_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 2.540 2.610 ? 4595 ? 0.011 2.2 1.136 ? 10.300 ? 447 100.000 1 1 2.610 2.680 ? 4372 ? 0.011 3.0 0.849 ? 10.300 ? 425 100.000 2 1 2.680 2.760 ? 4450 ? 0.011 4.0 0.604 ? 10.200 ? 437 100.000 3 1 2.760 2.840 ? 4123 ? 0.011 4.9 0.499 ? 10.300 ? 402 100.000 4 1 2.840 2.930 ? 4135 ? 0.011 6.6 0.352 ? 10.200 ? 407 100.000 5 1 2.930 3.040 ? 3857 ? 0.011 8.8 0.245 ? 10.100 ? 381 100.000 6 1 3.040 3.150 ? 3816 ? 0.011 11.9 0.171 ? 10.000 ? 381 100.000 7 1 3.150 3.280 ? 3686 ? 0.011 14.6 0.127 ? 10.000 ? 369 100.000 8 1 3.280 3.430 ? 3527 ? 0.011 16.2 0.113 ? 9.900 ? 355 100.000 9 1 3.430 3.590 ? 3341 ? 0.011 19.8 0.085 ? 9.800 ? 340 100.000 10 1 3.590 3.790 ? 3121 ? 0.011 22.8 0.071 ? 9.800 ? 318 100.000 11 1 3.790 4.020 ? 2945 ? 0.011 27.5 0.059 ? 9.700 ? 305 100.000 12 1 4.020 4.290 ? 2797 ? 0.011 30.5 0.060 ? 9.500 ? 295 100.000 13 1 4.290 4.640 ? 2537 ? 0.011 32.4 0.061 ? 9.300 ? 274 100.000 14 1 4.640 5.080 ? 2314 ? 0.011 31.7 0.067 ? 9.000 ? 256 100.000 15 1 5.080 5.680 ? 1965 ? 0.011 30.7 0.069 ? 8.400 ? 234 99.900 16 1 5.680 6.560 ? 1939 ? 0.011 29.6 0.064 ? 9.100 ? 212 100.000 17 1 6.560 8.030 ? 1712 ? 0.011 31.2 0.048 ? 9.200 ? 186 100.000 18 1 8.030 11.360 ? 1323 ? 0.011 36.8 0.041 ? 8.600 ? 154 100.000 19 1 11.360 29.200 ? 687 ? 0.011 30.9 0.040 ? 7.400 ? 93 94.200 20 1 # _refine.entry_id 3ULH _refine.ls_d_res_high 2.5400 _refine.ls_d_res_low 29.200 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.8700 _refine.ls_number_reflns_obs 6245 _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 SUM OF TLS AND RESIDUAL B FACTORS. 3. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. 5. 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. 6. PHOSPHATE (PO4) MOLECULES FROM THE CRYSTALLIZATION SOLUTION ARE MODELED. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1819 _refine.ls_R_factor_R_work 0.1812 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.1954 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.6000 _refine.ls_number_reflns_R_free 289 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 64.6075 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.correlation_coeff_Fo_to_Fc 0.9630 _refine.correlation_coeff_Fo_to_Fc_free 0.9580 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.1710 _refine.overall_SU_ML 0.1270 _refine.overall_SU_B 11.8290 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _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 140.620 _refine.B_iso_min 38.720 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.150 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _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 632 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 26 _refine_hist.number_atoms_total 668 _refine_hist.d_res_high 2.5400 _refine_hist.d_res_low 29.200 # 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_restraint_function _refine_ls_restr.pdbx_refine_id r_bond_refined_d 672 0.012 0.019 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 450 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 911 1.958 1.988 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 1099 0.913 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 89 5.958 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 32 40.277 24.375 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 109 18.993 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 5 18.689 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 100 0.083 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 765 0.005 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 136 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_bond_it 672 2.945 3.228 ? ? 'X-RAY DIFFRACTION' r_bond_other 450 0.650 3.386 ? ? 'X-RAY DIFFRACTION' r_angle_it 908 4.861 4.760 ? ? 'X-RAY DIFFRACTION' r_angle_others 1099 2.978 5.003 ? ? 'X-RAY DIFFRACTION' r_torsion_it 235 9.026 9.740 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 2.5410 _refine_ls_shell.d_res_low 2.6060 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 100.0000 _refine_ls_shell.number_reflns_R_work 349 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.3470 _refine_ls_shell.R_factor_R_free 0.3830 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 15 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 364 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3ULH _struct.title 'Crystal structure of a RNA binding domain of THO complex subunit 4 protein (THOC4) from Homo sapiens at 2.54 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;nuclear protein, RNA binding, THO complex, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, RNA BINDING PROTEIN, Partnership for T-Cell Biology, TCELL ; _struct_keywords.pdbx_keywords 'RNA BINDING PROTEIN' _struct_keywords.entry_id 3ULH # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? # _struct_biol.id 1 _struct_biol.details 'CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE.' # 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 SER A 42 ? GLU A 52 ? SER A 118 GLU A 128 1 ? 11 HELX_P HELX_P2 2 ARG A 79 ? ASN A 91 ? ARG A 155 ASN A 167 1 ? 13 # _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 ALA 86 C ? ? ? 1_555 A MSE 87 N ? ? A ALA 162 A MSE 163 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale2 covale both ? A MSE 87 C ? ? ? 1_555 A LYS 88 N ? ? A MSE 163 A LYS 164 1_555 ? ? ? ? ? ? ? 1.350 ? ? covale3 covale both ? A PRO 99 C ? ? ? 1_555 A MSE 100 N ? ? A PRO 175 A MSE 176 1_555 ? ? ? ? ? ? ? 1.321 ? ? covale4 covale both ? A MSE 100 C ? ? ? 1_555 A ASN 101 N ? ? A MSE 176 A ASN 177 1_555 ? ? ? ? ? ? ? 1.332 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 LEU A 56 ? TYR A 63 ? LEU A 132 TYR A 139 A 2 SER A 69 ? PHE A 77 ? SER A 145 PHE A 153 A 3 GLY A 30 ? SER A 35 ? GLY A 106 SER A 111 A 4 ASN A 101 ? VAL A 105 ? ASN A 177 VAL A 181 B 1 PRO A 94 ? LEU A 95 ? PRO A 170 LEU A 171 B 2 ARG A 98 ? PRO A 99 ? ARG A 174 PRO A 175 # 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 LYS A 57 ? N LYS A 133 O HIS A 76 ? O HIS A 152 A 2 3 O PHE A 77 ? O PHE A 153 N GLY A 30 ? N GLY A 106 A 3 4 N LYS A 31 ? N LYS A 107 O VAL A 105 ? O VAL A 181 B 1 2 N LEU A 95 ? N LEU A 171 O ARG A 98 ? O ARG A 174 # 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 PO4 200 ? 12 'BINDING SITE FOR RESIDUE PO4 A 200' AC2 Software A PO4 201 ? 6 'BINDING SITE FOR RESIDUE PO4 A 201' # 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 12 ASN A 36 ? ASN A 112 . ? 5_555 ? 2 AC1 12 ASN A 36 ? ASN A 112 . ? 1_555 ? 3 AC1 12 ASN A 36 ? ASN A 112 . ? 9_555 ? 4 AC1 12 GLY A 97 ? GLY A 173 . ? 5_555 ? 5 AC1 12 ARG A 98 ? ARG A 174 . ? 9_555 ? 6 AC1 12 ARG A 98 ? ARG A 174 . ? 1_555 ? 7 AC1 12 ARG A 98 ? ARG A 174 . ? 5_555 ? 8 AC1 12 PRO A 99 ? PRO A 175 . ? 9_555 ? 9 AC1 12 PRO A 99 ? PRO A 175 . ? 5_555 ? 10 AC1 12 PO4 C . ? PO4 A 201 . ? 9_555 ? 11 AC1 12 PO4 C . ? PO4 A 201 . ? 5_555 ? 12 AC1 12 PO4 C . ? PO4 A 201 . ? 1_555 ? 13 AC2 6 ARG A 98 ? ARG A 174 . ? 1_555 ? 14 AC2 6 ARG A 98 ? ARG A 174 . ? 9_555 ? 15 AC2 6 ARG A 98 ? ARG A 174 . ? 5_555 ? 16 AC2 6 PO4 B . ? PO4 A 200 . ? 1_555 ? 17 AC2 6 PO4 B . ? PO4 A 200 . ? 9_555 ? 18 AC2 6 PO4 B . ? PO4 A 200 . ? 5_555 ? # _atom_sites.entry_id 3ULH _atom_sites.fract_transf_matrix[1][1] 0.009886 _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] 0.009886 _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] 0.009886 _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 P 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 SER 2 78 ? ? ? A . n A 1 3 ARG 3 79 ? ? ? A . n A 1 4 PRO 4 80 ? ? ? A . n A 1 5 LYS 5 81 ? ? ? A . n A 1 6 GLN 6 82 ? ? ? A . n A 1 7 LEU 7 83 ? ? ? A . n A 1 8 PRO 8 84 ? ? ? A . n A 1 9 ASP 9 85 ? ? ? A . n A 1 10 LYS 10 86 ? ? ? A . n A 1 11 TRP 11 87 ? ? ? A . n A 1 12 GLN 12 88 ? ? ? A . n A 1 13 HIS 13 89 ? ? ? A . n A 1 14 ASP 14 90 ? ? ? A . n A 1 15 LEU 15 91 ? ? ? A . n A 1 16 PHE 16 92 ? ? ? A . n A 1 17 ASP 17 93 ? ? ? A . n A 1 18 SER 18 94 ? ? ? A . n A 1 19 GLY 19 95 ? ? ? A . n A 1 20 PHE 20 96 ? ? ? A . n A 1 21 GLY 21 97 ? ? ? A . n A 1 22 GLY 22 98 ? ? ? A . n A 1 23 GLY 23 99 ? ? ? A . n A 1 24 ALA 24 100 100 ALA ALA A . n A 1 25 GLY 25 101 101 GLY GLY A . n A 1 26 VAL 26 102 102 VAL VAL A . n A 1 27 GLU 27 103 103 GLU GLU A . n A 1 28 THR 28 104 104 THR THR A . n A 1 29 GLY 29 105 105 GLY GLY A . n A 1 30 GLY 30 106 106 GLY GLY A . n A 1 31 LYS 31 107 107 LYS LYS A . n A 1 32 LEU 32 108 108 LEU LEU A . n A 1 33 LEU 33 109 109 LEU LEU A . n A 1 34 VAL 34 110 110 VAL VAL A . n A 1 35 SER 35 111 111 SER SER A . n A 1 36 ASN 36 112 112 ASN ASN A . n A 1 37 LEU 37 113 113 LEU LEU A . n A 1 38 ASP 38 114 114 ASP ASP A . n A 1 39 PHE 39 115 115 PHE PHE A . n A 1 40 GLY 40 116 116 GLY GLY A . n A 1 41 VAL 41 117 117 VAL VAL A . n A 1 42 SER 42 118 118 SER SER A . n A 1 43 ASP 43 119 119 ASP ASP A . n A 1 44 ALA 44 120 120 ALA ALA A . n A 1 45 ASP 45 121 121 ASP ASP A . n A 1 46 ILE 46 122 122 ILE ILE A . n A 1 47 GLN 47 123 123 GLN GLN A . n A 1 48 GLU 48 124 124 GLU GLU A . n A 1 49 LEU 49 125 125 LEU LEU A . n A 1 50 PHE 50 126 126 PHE PHE A . n A 1 51 ALA 51 127 127 ALA ALA A . n A 1 52 GLU 52 128 128 GLU GLU A . n A 1 53 PHE 53 129 129 PHE PHE A . n A 1 54 GLY 54 130 130 GLY GLY A . n A 1 55 THR 55 131 131 THR THR A . n A 1 56 LEU 56 132 132 LEU LEU A . n A 1 57 LYS 57 133 133 LYS LYS A . n A 1 58 LYS 58 134 134 LYS LYS A . n A 1 59 ALA 59 135 135 ALA ALA A . n A 1 60 ALA 60 136 136 ALA ALA A . n A 1 61 VAL 61 137 137 VAL VAL A . n A 1 62 HIS 62 138 138 HIS HIS A . n A 1 63 TYR 63 139 139 TYR TYR A . n A 1 64 ASP 64 140 140 ASP ASP A . n A 1 65 ARG 65 141 141 ARG ARG A . n A 1 66 SER 66 142 142 SER SER A . n A 1 67 GLY 67 143 143 GLY GLY A . n A 1 68 ARG 68 144 144 ARG ARG A . n A 1 69 SER 69 145 145 SER SER A . n A 1 70 LEU 70 146 146 LEU LEU A . n A 1 71 GLY 71 147 147 GLY GLY A . n A 1 72 THR 72 148 148 THR THR A . n A 1 73 ALA 73 149 149 ALA ALA A . n A 1 74 ASP 74 150 150 ASP ASP A . n A 1 75 VAL 75 151 151 VAL VAL A . n A 1 76 HIS 76 152 152 HIS HIS A . n A 1 77 PHE 77 153 153 PHE PHE A . n A 1 78 GLU 78 154 154 GLU GLU A . n A 1 79 ARG 79 155 155 ARG ARG A . n A 1 80 LYS 80 156 156 LYS LYS A . n A 1 81 ALA 81 157 157 ALA ALA A . n A 1 82 ASP 82 158 158 ASP ASP A . n A 1 83 ALA 83 159 159 ALA ALA A . n A 1 84 LEU 84 160 160 LEU LEU A . n A 1 85 LYS 85 161 161 LYS LYS A . n A 1 86 ALA 86 162 162 ALA ALA A . n A 1 87 MSE 87 163 163 MSE MSE A . n A 1 88 LYS 88 164 164 LYS LYS A . n A 1 89 GLN 89 165 165 GLN GLN A . n A 1 90 TYR 90 166 166 TYR TYR A . n A 1 91 ASN 91 167 167 ASN ASN A . n A 1 92 GLY 92 168 168 GLY GLY A . n A 1 93 VAL 93 169 169 VAL VAL A . n A 1 94 PRO 94 170 170 PRO PRO A . n A 1 95 LEU 95 171 171 LEU LEU A . n A 1 96 ASP 96 172 172 ASP ASP A . n A 1 97 GLY 97 173 173 GLY GLY A . n A 1 98 ARG 98 174 174 ARG ARG A . n A 1 99 PRO 99 175 175 PRO PRO A . n A 1 100 MSE 100 176 176 MSE MSE A . n A 1 101 ASN 101 177 177 ASN ASN A . n A 1 102 ILE 102 178 178 ILE ILE A . n A 1 103 GLN 103 179 179 GLN GLN A . n A 1 104 LEU 104 180 180 LEU LEU A . n A 1 105 VAL 105 181 181 VAL VAL A . n A 1 106 THR 106 182 182 THR THR A . n A 1 107 SER 107 183 183 SER SER A . n # loop_ _pdbx_SG_project.project_name _pdbx_SG_project.full_name_of_center _pdbx_SG_project.id _pdbx_SG_project.initial_of_center PSI:Biology 'Joint Center for Structural Genomics' 1 JCSG PSI:Biology 'Partnership for T-Cell Biology' 2 TCELL # 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 PO4 1 200 200 PO4 PO4 A . C 2 PO4 1 201 201 PO4 PO4 A . D 3 HOH 1 202 202 HOH HOH A . D 3 HOH 2 203 203 HOH HOH A . D 3 HOH 3 204 204 HOH HOH A . D 3 HOH 4 205 205 HOH HOH A . D 3 HOH 5 206 206 HOH HOH A . D 3 HOH 6 207 207 HOH HOH A . D 3 HOH 7 208 208 HOH HOH A . D 3 HOH 8 209 209 HOH HOH A . D 3 HOH 9 210 210 HOH HOH A . D 3 HOH 10 211 211 HOH HOH A . D 3 HOH 11 212 212 HOH HOH A . D 3 HOH 12 213 213 HOH HOH A . D 3 HOH 13 214 214 HOH HOH A . D 3 HOH 14 215 215 HOH HOH A . D 3 HOH 15 216 216 HOH HOH A . D 3 HOH 16 217 217 HOH HOH A . D 3 HOH 17 218 218 HOH HOH A . D 3 HOH 18 219 219 HOH HOH A . D 3 HOH 19 220 220 HOH HOH A . D 3 HOH 20 221 221 HOH HOH A . D 3 HOH 21 222 222 HOH HOH A . D 3 HOH 22 223 223 HOH HOH A . D 3 HOH 23 224 224 HOH HOH A . D 3 HOH 24 225 225 HOH HOH A . D 3 HOH 25 226 200 HOH HOH A . D 3 HOH 26 227 201 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 87 A MSE 163 ? MET SELENOMETHIONINE 2 A MSE 100 A MSE 176 ? 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 # 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)' 2140 ? 1 MORE -9 ? 1 'SSA (A^2)' 8390 ? # 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' 18_545 -x+1/4,z-1/4,y+1/4 -1.0000000000 0.0000000000 0.0000000000 25.2880000000 0.0000000000 0.0000000000 1.0000000000 -25.2880000000 0.0000000000 1.0000000000 0.0000000000 25.2880000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A PO4 201 ? C PO4 . 2 1 A PO4 201 ? C PO4 . # 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 2011-12-07 2 'Structure model' 1 1 2015-10-21 3 'Structure model' 1 2 2017-11-08 4 'Structure model' 1 3 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' 'Structure summary' 2 3 'Structure model' 'Refinement description' 3 4 'Structure model' 'Database references' 4 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 3 'Structure model' software 2 4 'Structure model' database_2 3 4 'Structure model' struct_conn 4 4 'Structure model' struct_ref_seq_dif 5 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 3 'Structure model' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_ref_seq_dif.details' 7 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 8 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 9 4 '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 21.3150 _pdbx_refine_tls.origin_y 9.8350 _pdbx_refine_tls.origin_z 34.2970 _pdbx_refine_tls.T[1][1] 0.3207 _pdbx_refine_tls.T[2][2] 0.2449 _pdbx_refine_tls.T[3][3] 0.1967 _pdbx_refine_tls.T[1][2] -0.0265 _pdbx_refine_tls.T[1][3] -0.0042 _pdbx_refine_tls.T[2][3] 0.0316 _pdbx_refine_tls.L[1][1] 4.6916 _pdbx_refine_tls.L[2][2] 2.9984 _pdbx_refine_tls.L[3][3] 7.3375 _pdbx_refine_tls.L[1][2] 0.0133 _pdbx_refine_tls.L[1][3] -1.4523 _pdbx_refine_tls.L[2][3] -0.8582 _pdbx_refine_tls.S[1][1] 0.2874 _pdbx_refine_tls.S[2][2] -0.3135 _pdbx_refine_tls.S[3][3] 0.0261 _pdbx_refine_tls.S[1][2] 0.1811 _pdbx_refine_tls.S[1][3] 0.0030 _pdbx_refine_tls.S[2][3] -0.2137 _pdbx_refine_tls.S[2][1] 0.0967 _pdbx_refine_tls.S[3][1] 0.0721 _pdbx_refine_tls.S[3][2] 0.3183 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 100 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 183 _pdbx_refine_tls_group.selection_details ? _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.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 2 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 SOLVE . ? program 'Tom Terwilliger' terwilliger@LANL.gov phasing http://www.solve.lanl.gov/ ? ? 4 SCALA 3.3.20 ? package 'Phil Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' ? ? ? 5 REFMAC 5.6.0117 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 6 MOSFLM . ? ? ? ? 'data reduction' ? ? ? # _pdbx_entry_details.entry_id 3ULH _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY RESIDUES 78-183 OF THE TARGET SEQUENCE. ; _pdbx_entry_details.has_ligand_of_interest ? # 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 164 ? CG ? A LYS 88 CG 2 1 Y 1 A LYS 164 ? CD ? A LYS 88 CD 3 1 Y 1 A LYS 164 ? CE ? A LYS 88 CE 4 1 Y 1 A LYS 164 ? NZ ? A LYS 88 NZ # 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 SER 78 ? A SER 2 3 1 Y 1 A ARG 79 ? A ARG 3 4 1 Y 1 A PRO 80 ? A PRO 4 5 1 Y 1 A LYS 81 ? A LYS 5 6 1 Y 1 A GLN 82 ? A GLN 6 7 1 Y 1 A LEU 83 ? A LEU 7 8 1 Y 1 A PRO 84 ? A PRO 8 9 1 Y 1 A ASP 85 ? A ASP 9 10 1 Y 1 A LYS 86 ? A LYS 10 11 1 Y 1 A TRP 87 ? A TRP 11 12 1 Y 1 A GLN 88 ? A GLN 12 13 1 Y 1 A HIS 89 ? A HIS 13 14 1 Y 1 A ASP 90 ? A ASP 14 15 1 Y 1 A LEU 91 ? A LEU 15 16 1 Y 1 A PHE 92 ? A PHE 16 17 1 Y 1 A ASP 93 ? A ASP 17 18 1 Y 1 A SER 94 ? A SER 18 19 1 Y 1 A GLY 95 ? A GLY 19 20 1 Y 1 A PHE 96 ? A PHE 20 21 1 Y 1 A GLY 97 ? A GLY 21 22 1 Y 1 A GLY 98 ? A GLY 22 23 1 Y 1 A GLY 99 ? A GLY 23 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH #