data_3SD2 # _entry.id 3SD2 # _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 3SD2 pdb_00003sd2 10.2210/pdb3sd2/pdb RCSB RCSB066055 ? ? WWPDB D_1000066055 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 393020 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3SD2 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-06-08 _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 a Putative member of DUF3244 protein family (BT_3571) from Bacteroides thetaiotaomicron VPI-5482 at 1.40 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 3SD2 _cell.length_a 46.702 _cell.length_b 46.702 _cell.length_c 85.161 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 6 _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 3SD2 _symmetry.Int_Tables_number 154 _symmetry.space_group_name_H-M 'P 32 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Putative member of DUF3244 protein family' 11282.390 1 ? ? 'sequence database residues 19-118' ? 2 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 ;GANSNDIHLLKDSRSNP(MSE)GIPIQPTYEKCAILSNILNVSFGRAKDYAIITVTNKATGEIVHSKTYHNTSIV(MSE) ID(MSE)SSCEKGEYTIHIILNDCLLEGTFTVQ ; _entity_poly.pdbx_seq_one_letter_code_can ;GANSNDIHLLKDSRSNPMGIPIQPTYEKCAILSNILNVSFGRAKDYAIITVTNKATGEIVHSKTYHNTSIVMIDMSSCEK GEYTIHIILNDCLLEGTFTVQ ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 393020 # 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 ALA n 1 3 ASN n 1 4 SER n 1 5 ASN n 1 6 ASP n 1 7 ILE n 1 8 HIS n 1 9 LEU n 1 10 LEU n 1 11 LYS n 1 12 ASP n 1 13 SER n 1 14 ARG n 1 15 SER n 1 16 ASN n 1 17 PRO n 1 18 MSE n 1 19 GLY n 1 20 ILE n 1 21 PRO n 1 22 ILE n 1 23 GLN n 1 24 PRO n 1 25 THR n 1 26 TYR n 1 27 GLU n 1 28 LYS n 1 29 CYS n 1 30 ALA n 1 31 ILE n 1 32 LEU n 1 33 SER n 1 34 ASN n 1 35 ILE n 1 36 LEU n 1 37 ASN n 1 38 VAL n 1 39 SER n 1 40 PHE n 1 41 GLY n 1 42 ARG n 1 43 ALA n 1 44 LYS n 1 45 ASP n 1 46 TYR n 1 47 ALA n 1 48 ILE n 1 49 ILE n 1 50 THR n 1 51 VAL n 1 52 THR n 1 53 ASN n 1 54 LYS n 1 55 ALA n 1 56 THR n 1 57 GLY n 1 58 GLU n 1 59 ILE n 1 60 VAL n 1 61 HIS n 1 62 SER n 1 63 LYS n 1 64 THR n 1 65 TYR n 1 66 HIS n 1 67 ASN n 1 68 THR n 1 69 SER n 1 70 ILE n 1 71 VAL n 1 72 MSE n 1 73 ILE n 1 74 ASP n 1 75 MSE n 1 76 SER n 1 77 SER n 1 78 CYS n 1 79 GLU n 1 80 LYS n 1 81 GLY n 1 82 GLU n 1 83 TYR n 1 84 THR n 1 85 ILE n 1 86 HIS n 1 87 ILE n 1 88 ILE n 1 89 LEU n 1 90 ASN n 1 91 ASP n 1 92 CYS n 1 93 LEU n 1 94 LEU n 1 95 GLU n 1 96 GLY n 1 97 THR n 1 98 PHE n 1 99 THR n 1 100 VAL n 1 101 GLN 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 ? _entity_src_gen.pdbx_gene_src_gene BT_3571 _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 'Bacteroides thetaiotaomicron' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 818 _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 Q8A1T7_BACTN _struct_ref.pdbx_db_accession Q8A1T7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;ANSNDIHLLKDSRSNPMGIPIQPTYEKCAILSNILNVSFGRAKDYAIITVTNKATGEIVHSKTYHNTSIVMIDMSSCEKG EYTIHIILNDCLLEGTFTVQ ; _struct_ref.pdbx_align_begin 19 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3SD2 _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 101 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8A1T7 _struct_ref_seq.db_align_beg 19 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 118 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 19 _struct_ref_seq.pdbx_auth_seq_align_end 118 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3SD2 _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 Q8A1T7 _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 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 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 3SD2 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.38 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 48.24 _exptl_crystal.description 'DATA WERE SCALED USING XSCALE WITH FRIEDEL PAIRS KEPT AS SEPARATE WHEN COMPUTING R MERGE, 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 5.6 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pdbx_details ;30.00% polyethylene glycol 200, 1.00M lithium sulfate, 0.1M sodium citrate pH 5.6, 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 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (ho rizontal focusing)' _diffrn_detector.pdbx_collection_date 2011-05-26 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'single crystal Si(111) bent' _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 0.97935 1.0 3 0.97898 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL11-1 _diffrn_source.type 'SSRL BEAMLINE BL11-1' _diffrn_source.pdbx_wavelength_list 0.91837,0.97935,0.97898 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 3SD2 _reflns.d_resolution_high 1.40 _reflns.d_resolution_low 29.325 _reflns.number_obs 21813 _reflns.pdbx_Rmerge_I_obs 0.044 _reflns.pdbx_netI_over_sigmaI 14.970 _reflns.percent_possible_obs 99.400 _reflns.B_iso_Wilson_estimate 16.649 _reflns.observed_criterion_sigma_I -3.000 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.400 1.450 12369 ? 4045 0.545 2.1 ? ? ? ? ? 98.100 1 1 1.450 1.510 14425 ? 4212 0.395 3.0 ? ? ? ? ? 99.700 2 1 1.510 1.580 14076 ? 4118 0.246 4.8 ? ? ? ? ? 99.800 3 1 1.580 1.660 13576 ? 3919 0.181 6.4 ? ? ? ? ? 99.900 4 1 1.660 1.760 13647 ? 3940 0.129 8.9 ? ? ? ? ? 99.800 5 1 1.760 1.900 14818 ? 4257 0.081 13.6 ? ? ? ? ? 99.900 6 1 1.900 2.090 13732 ? 3988 0.053 19.9 ? ? ? ? ? 99.000 7 1 2.090 2.390 14176 ? 4067 0.042 24.9 ? ? ? ? ? 99.500 8 1 2.390 3.010 14477 ? 4121 0.034 29.6 ? ? ? ? ? 100.000 9 1 3.010 29.325 14335 ? 4104 0.030 36.3 ? ? ? ? ? 98.900 10 1 # _refine.entry_id 3SD2 _refine.ls_d_res_high 1.4000 _refine.ls_d_res_low 29.325 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.8500 _refine.ls_number_reflns_obs 21775 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;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 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. THE SIDECHAIN OF CYS A109 SHOWS MULTIPLE CONFORMATIONS. IT WAS MODELED WITH A DISULFIDE BOND BETWEEN CONFORMER A AND THE SYMMETRY RELATED CONFORMER A. CONFORMERS B AND C WERE MODELED AS NOT FORMING A DISULFIDE BOND TO SYMMETRY RELATED ATOMS. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1636 _refine.ls_R_factor_R_work 0.1616 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2043 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.1000 _refine.ls_number_reflns_R_free 1111 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 21.8402 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.3200 _refine.aniso_B[2][2] -0.3200 _refine.aniso_B[3][3] 0.4800 _refine.aniso_B[1][2] -0.1600 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9680 _refine.correlation_coeff_Fo_to_Fc_free 0.9420 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.0590 _refine.overall_SU_ML 0.0330 _refine.overall_SU_B 1.8120 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.4000 _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 65.970 _refine.B_iso_min 11.640 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.200 _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 0.060 _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 648 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 99 _refine_hist.number_atoms_total 747 _refine_hist.d_res_high 1.4000 _refine_hist.d_res_low 29.325 # 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 790 0.014 0.022 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 499 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 1098 1.666 1.963 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 1271 0.966 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 116 8.515 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 30 40.493 26.333 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 144 12.485 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 135 0.105 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 900 0.008 0.021 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 136 0.006 0.020 ? ? 'X-RAY DIFFRACTION' r_mcbond_it 499 1.608 1.500 ? ? 'X-RAY DIFFRACTION' r_mcbond_other 196 0.634 1.500 ? ? 'X-RAY DIFFRACTION' r_mcangle_it 835 2.659 2.000 ? ? 'X-RAY DIFFRACTION' r_scbond_it 291 3.488 3.000 ? ? 'X-RAY DIFFRACTION' r_scangle_it 249 5.192 4.500 ? ? 'X-RAY DIFFRACTION' r_rigid_bond_restr 1289 1.579 3.000 ? ? 'X-RAY DIFFRACTION' r_sphericity_free 104 7.065 3.000 ? ? 'X-RAY DIFFRACTION' r_sphericity_bonded 1257 3.714 3.000 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 1.4010 _refine_ls_shell.d_res_low 1.4370 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 99.4300 _refine_ls_shell.number_reflns_R_work 1484 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2020 _refine_ls_shell.R_factor_R_free 0.2080 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 89 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1573 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3SD2 _struct.title ;Crystal structure of a putative member of duf3244 protein family (BT_3571) from Bacteroides thetaiotaomicron vpi-5482 at 1.40 A resolution ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;Immunoglobulin-like beta-sandwich, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, UNKNOWN FUNCTION ; _struct_keywords.pdbx_keywords 'UNKNOWN FUNCTION' _struct_keywords.entry_id 3SD2 # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _struct_biol.id 1 _struct_biol.details 'CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE.' # 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 disulf1 disulf ? ? A CYS 92 SG A ? ? 1_555 A CYS 92 SG A ? A CYS 109 A CYS 109 5_555 ? ? ? ? ? ? ? 2.067 ? ? covale1 covale both ? A PRO 17 C A ? ? 1_555 A MSE 18 N ? ? A PRO 34 A MSE 35 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale2 covale both ? A PRO 17 C B ? ? 1_555 A MSE 18 N ? ? A PRO 34 A MSE 35 1_555 ? ? ? ? ? ? ? 1.340 ? ? covale3 covale both ? A MSE 18 C ? ? ? 1_555 A GLY 19 N ? ? A MSE 35 A GLY 36 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale4 covale both ? A VAL 71 C ? ? ? 1_555 A MSE 72 N ? ? A VAL 88 A MSE 89 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale5 covale both ? A MSE 72 C ? ? ? 1_555 A ILE 73 N ? ? A MSE 89 A ILE 90 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale6 covale both ? A ASP 74 C ? ? ? 1_555 A MSE 75 N ? ? A ASP 91 A MSE 92 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale7 covale both ? A MSE 75 C ? ? ? 1_555 A SER 76 N ? ? A MSE 92 A SER 93 1_555 ? ? ? ? ? ? ? 1.333 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # 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 ? 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 GLU A 27 ? LEU A 32 ? GLU A 44 LEU A 49 A 2 ILE A 35 ? PHE A 40 ? ILE A 52 PHE A 57 A 3 ILE A 70 ? ASP A 74 ? ILE A 87 ASP A 91 B 1 ILE A 59 ? TYR A 65 ? ILE A 76 TYR A 82 B 2 ALA A 47 ? ASN A 53 ? ALA A 64 ASN A 70 B 3 GLY A 81 ? LEU A 89 ? GLY A 98 LEU A 106 B 4 CYS A 92 ? VAL A 100 ? CYS A 109 VAL A 117 # 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 ALA A 30 ? N ALA A 47 O ASN A 37 ? O ASN A 54 A 2 3 N VAL A 38 ? N VAL A 55 O VAL A 71 ? O VAL A 88 B 1 2 O TYR A 65 ? O TYR A 82 N ALA A 47 ? N ALA A 64 B 2 3 N THR A 50 ? N THR A 67 O HIS A 86 ? O HIS A 103 B 3 4 N ILE A 87 ? N ILE A 104 O LEU A 94 ? O LEU A 111 # _atom_sites.entry_id 3SD2 _atom_sites.fract_transf_matrix[1][1] 0.021412 _atom_sites.fract_transf_matrix[1][2] 0.012362 _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] 0.024725 _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] 0.011742 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 0 ? ? ? A . n A 1 2 ALA 2 19 ? ? ? A . n A 1 3 ASN 3 20 ? ? ? A . n A 1 4 SER 4 21 ? ? ? A . n A 1 5 ASN 5 22 ? ? ? A . n A 1 6 ASP 6 23 ? ? ? A . n A 1 7 ILE 7 24 ? ? ? A . n A 1 8 HIS 8 25 ? ? ? A . n A 1 9 LEU 9 26 ? ? ? A . n A 1 10 LEU 10 27 ? ? ? A . n A 1 11 LYS 11 28 ? ? ? A . n A 1 12 ASP 12 29 ? ? ? A . n A 1 13 SER 13 30 ? ? ? A . n A 1 14 ARG 14 31 ? ? ? A . n A 1 15 SER 15 32 ? ? ? A . n A 1 16 ASN 16 33 33 ASN ASN A . n A 1 17 PRO 17 34 34 PRO PRO A . n A 1 18 MSE 18 35 35 MSE MSE A . n A 1 19 GLY 19 36 36 GLY GLY A . n A 1 20 ILE 20 37 37 ILE ILE A . n A 1 21 PRO 21 38 38 PRO PRO A . n A 1 22 ILE 22 39 39 ILE ILE A . n A 1 23 GLN 23 40 40 GLN GLN A . n A 1 24 PRO 24 41 41 PRO PRO A . n A 1 25 THR 25 42 42 THR THR A . n A 1 26 TYR 26 43 43 TYR TYR A . n A 1 27 GLU 27 44 44 GLU GLU A . n A 1 28 LYS 28 45 45 LYS LYS A . n A 1 29 CYS 29 46 46 CYS CYS A . n A 1 30 ALA 30 47 47 ALA ALA A . n A 1 31 ILE 31 48 48 ILE ILE A . n A 1 32 LEU 32 49 49 LEU LEU A . n A 1 33 SER 33 50 50 SER SER A . n A 1 34 ASN 34 51 51 ASN ASN A . n A 1 35 ILE 35 52 52 ILE ILE A . n A 1 36 LEU 36 53 53 LEU LEU A . n A 1 37 ASN 37 54 54 ASN ASN A . n A 1 38 VAL 38 55 55 VAL VAL A . n A 1 39 SER 39 56 56 SER SER A . n A 1 40 PHE 40 57 57 PHE PHE A . n A 1 41 GLY 41 58 58 GLY GLY A . n A 1 42 ARG 42 59 59 ARG ARG A . n A 1 43 ALA 43 60 60 ALA ALA A . n A 1 44 LYS 44 61 61 LYS LYS A . n A 1 45 ASP 45 62 62 ASP ASP A . n A 1 46 TYR 46 63 63 TYR TYR A . n A 1 47 ALA 47 64 64 ALA ALA A . n A 1 48 ILE 48 65 65 ILE ILE A . n A 1 49 ILE 49 66 66 ILE ILE A . n A 1 50 THR 50 67 67 THR THR A . n A 1 51 VAL 51 68 68 VAL VAL A . n A 1 52 THR 52 69 69 THR THR A . n A 1 53 ASN 53 70 70 ASN ASN A . n A 1 54 LYS 54 71 71 LYS LYS A . n A 1 55 ALA 55 72 72 ALA ALA A . n A 1 56 THR 56 73 73 THR THR A . n A 1 57 GLY 57 74 74 GLY GLY A . n A 1 58 GLU 58 75 75 GLU GLU A . n A 1 59 ILE 59 76 76 ILE ILE A . n A 1 60 VAL 60 77 77 VAL VAL A . n A 1 61 HIS 61 78 78 HIS HIS A . n A 1 62 SER 62 79 79 SER SER A . n A 1 63 LYS 63 80 80 LYS LYS A . n A 1 64 THR 64 81 81 THR THR A . n A 1 65 TYR 65 82 82 TYR TYR A . n A 1 66 HIS 66 83 83 HIS HIS A . n A 1 67 ASN 67 84 84 ASN ASN A . n A 1 68 THR 68 85 85 THR THR A . n A 1 69 SER 69 86 86 SER SER A . n A 1 70 ILE 70 87 87 ILE ILE A . n A 1 71 VAL 71 88 88 VAL VAL A . n A 1 72 MSE 72 89 89 MSE MSE A . n A 1 73 ILE 73 90 90 ILE ILE A . n A 1 74 ASP 74 91 91 ASP ASP A . n A 1 75 MSE 75 92 92 MSE MSE A . n A 1 76 SER 76 93 93 SER SER A . n A 1 77 SER 77 94 94 SER SER A . n A 1 78 CYS 78 95 95 CYS CYS A . n A 1 79 GLU 79 96 96 GLU GLU A . n A 1 80 LYS 80 97 97 LYS LYS A . n A 1 81 GLY 81 98 98 GLY GLY A . n A 1 82 GLU 82 99 99 GLU GLU A . n A 1 83 TYR 83 100 100 TYR TYR A . n A 1 84 THR 84 101 101 THR THR A . n A 1 85 ILE 85 102 102 ILE ILE A . n A 1 86 HIS 86 103 103 HIS HIS A . n A 1 87 ILE 87 104 104 ILE ILE A . n A 1 88 ILE 88 105 105 ILE ILE A . n A 1 89 LEU 89 106 106 LEU LEU A . n A 1 90 ASN 90 107 107 ASN ASN A . n A 1 91 ASP 91 108 108 ASP ASP A . n A 1 92 CYS 92 109 109 CYS CYS A . n A 1 93 LEU 93 110 110 LEU LEU A . n A 1 94 LEU 94 111 111 LEU LEU A . n A 1 95 GLU 95 112 112 GLU GLU A . n A 1 96 GLY 96 113 113 GLY GLY A . n A 1 97 THR 97 114 114 THR THR A . n A 1 98 PHE 98 115 115 PHE PHE A . n A 1 99 THR 99 116 116 THR THR A . n A 1 100 VAL 100 117 117 VAL VAL A . n A 1 101 GLN 101 118 118 GLN GLN A . n # _pdbx_SG_project.project_name PSI:Biology _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 200 200 HOH HOH A . B 2 HOH 2 201 201 HOH HOH A . B 2 HOH 3 202 202 HOH HOH A . B 2 HOH 4 203 203 HOH HOH A . B 2 HOH 5 204 204 HOH HOH A . B 2 HOH 6 205 205 HOH HOH A . B 2 HOH 7 206 206 HOH HOH A . B 2 HOH 8 207 207 HOH HOH A . B 2 HOH 9 208 208 HOH HOH A . B 2 HOH 10 209 209 HOH HOH A . B 2 HOH 11 210 210 HOH HOH A . B 2 HOH 12 211 211 HOH HOH A . B 2 HOH 13 212 212 HOH HOH A . B 2 HOH 14 213 213 HOH HOH A . B 2 HOH 15 214 214 HOH HOH A . B 2 HOH 16 215 215 HOH HOH A . B 2 HOH 17 216 216 HOH HOH A . B 2 HOH 18 217 217 HOH HOH A . B 2 HOH 19 218 218 HOH HOH A . B 2 HOH 20 219 219 HOH HOH A . B 2 HOH 21 220 220 HOH HOH A . B 2 HOH 22 221 221 HOH HOH A . B 2 HOH 23 222 222 HOH HOH A . B 2 HOH 24 223 223 HOH HOH A . B 2 HOH 25 224 224 HOH HOH A . B 2 HOH 26 225 225 HOH HOH A . B 2 HOH 27 226 226 HOH HOH A . B 2 HOH 28 227 227 HOH HOH A . B 2 HOH 29 228 228 HOH HOH A . B 2 HOH 30 229 229 HOH HOH A . B 2 HOH 31 230 230 HOH HOH A . B 2 HOH 32 231 231 HOH HOH A . B 2 HOH 33 232 232 HOH HOH A . B 2 HOH 34 233 233 HOH HOH A . B 2 HOH 35 234 234 HOH HOH A . B 2 HOH 36 235 235 HOH HOH A . B 2 HOH 37 236 236 HOH HOH A . B 2 HOH 38 237 237 HOH HOH A . B 2 HOH 39 238 238 HOH HOH A . B 2 HOH 40 239 239 HOH HOH A . B 2 HOH 41 240 240 HOH HOH A . B 2 HOH 42 241 241 HOH HOH A . B 2 HOH 43 242 242 HOH HOH A . B 2 HOH 44 243 243 HOH HOH A . B 2 HOH 45 244 244 HOH HOH A . B 2 HOH 46 245 245 HOH HOH A . B 2 HOH 47 246 246 HOH HOH A . B 2 HOH 48 247 247 HOH HOH A . B 2 HOH 49 248 248 HOH HOH A . B 2 HOH 50 249 249 HOH HOH A . B 2 HOH 51 250 250 HOH HOH A . B 2 HOH 52 251 251 HOH HOH A . B 2 HOH 53 252 252 HOH HOH A . B 2 HOH 54 253 253 HOH HOH A . B 2 HOH 55 254 254 HOH HOH A . B 2 HOH 56 255 255 HOH HOH A . B 2 HOH 57 256 256 HOH HOH A . B 2 HOH 58 257 257 HOH HOH A . B 2 HOH 59 258 258 HOH HOH A . B 2 HOH 60 259 259 HOH HOH A . B 2 HOH 61 260 260 HOH HOH A . B 2 HOH 62 261 261 HOH HOH A . B 2 HOH 63 262 262 HOH HOH A . B 2 HOH 64 263 263 HOH HOH A . B 2 HOH 65 264 264 HOH HOH A . B 2 HOH 66 265 265 HOH HOH A . B 2 HOH 67 266 266 HOH HOH A . B 2 HOH 68 267 267 HOH HOH A . B 2 HOH 69 268 268 HOH HOH A . B 2 HOH 70 269 269 HOH HOH A . B 2 HOH 71 270 270 HOH HOH A . B 2 HOH 72 271 271 HOH HOH A . B 2 HOH 73 272 272 HOH HOH A . B 2 HOH 74 273 273 HOH HOH A . B 2 HOH 75 274 274 HOH HOH A . B 2 HOH 76 275 275 HOH HOH A . B 2 HOH 77 276 276 HOH HOH A . B 2 HOH 78 277 277 HOH HOH A . B 2 HOH 79 278 278 HOH HOH A . B 2 HOH 80 279 279 HOH HOH A . B 2 HOH 81 280 280 HOH HOH A . B 2 HOH 82 281 281 HOH HOH A . B 2 HOH 83 282 282 HOH HOH A . B 2 HOH 84 283 283 HOH HOH A . B 2 HOH 85 284 284 HOH HOH A . B 2 HOH 86 285 285 HOH HOH A . B 2 HOH 87 286 286 HOH HOH A . B 2 HOH 88 287 287 HOH HOH A . B 2 HOH 89 288 288 HOH HOH A . B 2 HOH 90 289 289 HOH HOH A . B 2 HOH 91 290 290 HOH HOH A . B 2 HOH 92 291 291 HOH HOH A . B 2 HOH 93 292 292 HOH HOH A . B 2 HOH 94 293 293 HOH HOH A . B 2 HOH 95 294 294 HOH HOH A . B 2 HOH 96 295 295 HOH HOH A . B 2 HOH 97 296 296 HOH HOH A . B 2 HOH 98 297 297 HOH HOH A . B 2 HOH 99 298 298 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 18 A MSE 35 ? MET SELENOMETHIONINE 2 A MSE 72 A MSE 89 ? MET SELENOMETHIONINE 3 A MSE 75 A MSE 92 ? 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 # 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)' 2580 ? 1 MORE -17 ? 1 'SSA (A^2)' 9000 ? # 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' 5_555 x-y,-y,-z+1/3 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 28.3870000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id ASN _pdbx_struct_special_symmetry.auth_seq_id 107 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id A _pdbx_struct_special_symmetry.label_comp_id ASN _pdbx_struct_special_symmetry.label_seq_id 90 # 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 2011-06-29 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-11-23 4 'Structure model' 1 3 2017-11-08 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' 'Version format compliance' 2 3 'Structure model' 'Structure summary' 3 4 'Structure model' 'Refinement description' 4 5 'Structure model' 'Database references' 5 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 4 'Structure model' software 2 5 'Structure model' database_2 3 5 'Structure model' pdbx_struct_special_symmetry 4 5 'Structure model' struct_conn 5 5 'Structure model' struct_ref_seq_dif # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_software.classification' 2 4 'Structure model' '_software.name' 3 5 'Structure model' '_database_2.pdbx_DOI' 4 5 'Structure model' '_database_2.pdbx_database_accession' 5 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 5 'Structure model' '_struct_ref_seq_dif.details' # _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 SHELX . ? package 'George M. Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 4 SHARP . ? package 'Eric de La Fortelle' sharp-develop@globalphasing.com phasing http://www.globalphasing.com/sharp/ ? ? 5 XSCALE 'December 6, 2010' ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html ? ? 6 REFMAC 5.5.0110 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 7 XDS . ? ? ? ? 'data reduction' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? # _pdbx_entry_details.entry_id 3SD2 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS CONSTRUCT (RESIDUES 19-118) 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 ? # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 SER A 79 ? ? -160.02 111.11 2 1 ASN A 107 ? A -3.37 -110.85 3 1 ASN A 107 ? B 51.16 -103.87 4 1 ASP A 108 ? A -107.65 78.91 # _pdbx_validate_peptide_omega.id 1 _pdbx_validate_peptide_omega.PDB_model_num 1 _pdbx_validate_peptide_omega.auth_comp_id_1 ASP _pdbx_validate_peptide_omega.auth_asym_id_1 A _pdbx_validate_peptide_omega.auth_seq_id_1 108 _pdbx_validate_peptide_omega.PDB_ins_code_1 ? _pdbx_validate_peptide_omega.label_alt_id_1 A _pdbx_validate_peptide_omega.auth_comp_id_2 CYS _pdbx_validate_peptide_omega.auth_asym_id_2 A _pdbx_validate_peptide_omega.auth_seq_id_2 109 _pdbx_validate_peptide_omega.PDB_ins_code_2 ? _pdbx_validate_peptide_omega.label_alt_id_2 A _pdbx_validate_peptide_omega.omega 135.95 # 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 ASN 33 ? CG ? A ASN 16 CG 2 1 Y 1 A ASN 33 ? OD1 ? A ASN 16 OD1 3 1 Y 1 A ASN 33 ? ND2 ? A ASN 16 ND2 4 1 Y 1 A ARG 59 ? NE ? A ARG 42 NE 5 1 Y 1 A ARG 59 ? CZ ? A ARG 42 CZ 6 1 Y 1 A ARG 59 ? NH1 ? A ARG 42 NH1 7 1 Y 1 A ARG 59 ? NH2 ? A ARG 42 NH2 8 1 Y 1 A ASP 62 ? CG ? A ASP 45 CG 9 1 Y 1 A ASP 62 ? OD1 ? A ASP 45 OD1 10 1 Y 1 A ASP 62 ? OD2 ? A ASP 45 OD2 11 1 Y 1 A TYR 63 ? CG ? A TYR 46 CG 12 1 Y 1 A TYR 63 ? CD1 ? A TYR 46 CD1 13 1 Y 1 A TYR 63 ? CD2 ? A TYR 46 CD2 14 1 Y 1 A TYR 63 ? CE1 ? A TYR 46 CE1 15 1 Y 1 A TYR 63 ? CE2 ? A TYR 46 CE2 16 1 Y 1 A TYR 63 ? CZ ? A TYR 46 CZ 17 1 Y 1 A TYR 63 ? OH ? A TYR 46 OH # 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 ALA 19 ? A ALA 2 3 1 Y 1 A ASN 20 ? A ASN 3 4 1 Y 1 A SER 21 ? A SER 4 5 1 Y 1 A ASN 22 ? A ASN 5 6 1 Y 1 A ASP 23 ? A ASP 6 7 1 Y 1 A ILE 24 ? A ILE 7 8 1 Y 1 A HIS 25 ? A HIS 8 9 1 Y 1 A LEU 26 ? A LEU 9 10 1 Y 1 A LEU 27 ? A LEU 10 11 1 Y 1 A LYS 28 ? A LYS 11 12 1 Y 1 A ASP 29 ? A ASP 12 13 1 Y 1 A SER 30 ? A SER 13 14 1 Y 1 A ARG 31 ? A ARG 14 15 1 Y 1 A SER 32 ? A SER 15 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #