data_3SON # _entry.id 3SON # _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 3SON pdb_00003son 10.2210/pdb3son/pdb RCSB RCSB066460 ? ? WWPDB D_1000066460 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 376521 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3SON _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-06-30 _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 Hypothetical NUDIX hydrolase (LMOf2365_2679) from LISTERIA MONOCYTOGENES (ATCC 19115) at 1.70 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 3SON _cell.length_a 57.880 _cell.length_b 57.880 _cell.length_c 94.490 _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 3SON _symmetry.Int_Tables_number 78 _symmetry.space_group_name_H-M 'P 43' _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 'Hypothetical NUDIX hydrolase' 17398.807 2 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 2 ? ? ? ? 3 water nat water 18.015 169 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'MutT/nudix family protein' # _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)RQPFQVLVIPFIKTEANYQFGVLHRTDADVWQFVAGGGEDEEAISETAKRESIEELNLDVDVK(MSE)YSLDSH ASIPNFHFSFNKPYVVPEYCFAIDLTSCSYQVTLSLEHSELRWVSYESAIQLLEWDSNKTALYELNERLKNND(MSE)KA (MSE) ; _entity_poly.pdbx_seq_one_letter_code_can ;GMRQPFQVLVIPFIKTEANYQFGVLHRTDADVWQFVAGGGEDEEAISETAKRESIEELNLDVDVKMYSLDSHASIPNFHF SFNKPYVVPEYCFAIDLTSCSYQVTLSLEHSELRWVSYESAIQLLEWDSNKTALYELNERLKNNDMKAM ; _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier 376521 # 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 ARG n 1 4 GLN n 1 5 PRO n 1 6 PHE n 1 7 GLN n 1 8 VAL n 1 9 LEU n 1 10 VAL n 1 11 ILE n 1 12 PRO n 1 13 PHE n 1 14 ILE n 1 15 LYS n 1 16 THR n 1 17 GLU n 1 18 ALA n 1 19 ASN n 1 20 TYR n 1 21 GLN n 1 22 PHE n 1 23 GLY n 1 24 VAL n 1 25 LEU n 1 26 HIS n 1 27 ARG n 1 28 THR n 1 29 ASP n 1 30 ALA n 1 31 ASP n 1 32 VAL n 1 33 TRP n 1 34 GLN n 1 35 PHE n 1 36 VAL n 1 37 ALA n 1 38 GLY n 1 39 GLY n 1 40 GLY n 1 41 GLU n 1 42 ASP n 1 43 GLU n 1 44 GLU n 1 45 ALA n 1 46 ILE n 1 47 SER n 1 48 GLU n 1 49 THR n 1 50 ALA n 1 51 LYS n 1 52 ARG n 1 53 GLU n 1 54 SER n 1 55 ILE n 1 56 GLU n 1 57 GLU n 1 58 LEU n 1 59 ASN n 1 60 LEU n 1 61 ASP n 1 62 VAL n 1 63 ASP n 1 64 VAL n 1 65 LYS n 1 66 MSE n 1 67 TYR n 1 68 SER n 1 69 LEU n 1 70 ASP n 1 71 SER n 1 72 HIS n 1 73 ALA n 1 74 SER n 1 75 ILE n 1 76 PRO n 1 77 ASN n 1 78 PHE n 1 79 HIS n 1 80 PHE n 1 81 SER n 1 82 PHE n 1 83 ASN n 1 84 LYS n 1 85 PRO n 1 86 TYR n 1 87 VAL n 1 88 VAL n 1 89 PRO n 1 90 GLU n 1 91 TYR n 1 92 CYS n 1 93 PHE n 1 94 ALA n 1 95 ILE n 1 96 ASP n 1 97 LEU n 1 98 THR n 1 99 SER n 1 100 CYS n 1 101 SER n 1 102 TYR n 1 103 GLN n 1 104 VAL n 1 105 THR n 1 106 LEU n 1 107 SER n 1 108 LEU n 1 109 GLU n 1 110 HIS n 1 111 SER n 1 112 GLU n 1 113 LEU n 1 114 ARG n 1 115 TRP n 1 116 VAL n 1 117 SER n 1 118 TYR n 1 119 GLU n 1 120 SER n 1 121 ALA n 1 122 ILE n 1 123 GLN n 1 124 LEU n 1 125 LEU n 1 126 GLU n 1 127 TRP n 1 128 ASP n 1 129 SER n 1 130 ASN n 1 131 LYS n 1 132 THR n 1 133 ALA n 1 134 LEU n 1 135 TYR n 1 136 GLU n 1 137 LEU n 1 138 ASN n 1 139 GLU n 1 140 ARG n 1 141 LEU n 1 142 LYS n 1 143 ASN n 1 144 ASN n 1 145 ASP n 1 146 MSE n 1 147 LYS n 1 148 ALA n 1 149 MSE 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 LMOf2365_2679 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'Li 2' _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 'Listeria monocytogenes' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 176281 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc 19115 _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 Q71W72_LISMF _struct_ref.pdbx_db_accession Q71W72 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MRQPFQVLVIPFIKTEANYQFGVLHRTDADVWQFVAGGGEDEEAISETAKRESIEELNLDVDVKMYSLDSHASIPNFHFS FNKPYVVPEYCFAIDLTSCSYQVTLSLEHSELRWVSYESAVQLLEWDSNKTALYELNERLKNNDMKAM ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3SON A 2 ? 149 ? Q71W72 1 ? 148 ? 1 148 2 1 3SON B 2 ? 149 ? Q71W72 1 ? 148 ? 1 148 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 3SON GLY A 1 ? UNP Q71W72 ? ? 'expression tag' 0 1 1 3SON ILE A 122 ? UNP Q71W72 VAL 121 'see remark 999' 121 2 2 3SON GLY B 1 ? UNP Q71W72 ? ? 'expression tag' 0 3 2 3SON ILE B 122 ? UNP Q71W72 VAL 121 'see remark 999' 121 4 # 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 3SON # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.27 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 45.92 _exptl_crystal.description ;The crystal was larger than the beam. After collecting the 3-wavelength MAD data set, the crystal was translated to place a fresh part of the crystal in the beam before collecting the data used in refinement. ; _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 6.0 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '10.0% 2-propanol, 0.2M Ca(OAc)2, 0.1M MES pH 6.0, 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 325 mm CCD' _diffrn_detector.details 'Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (ho rizontal focusing)' _diffrn_detector.pdbx_collection_date 2007-07-19 # _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 0.97937 1.0 3 0.97908 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 0.91837,0.97937,0.97908 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 3SON _reflns.d_resolution_high 1.70 _reflns.d_resolution_low 27.671 _reflns.number_obs 34048 _reflns.pdbx_Rmerge_I_obs 0.042 _reflns.pdbx_netI_over_sigmaI 13.880 _reflns.percent_possible_obs 99.000 _reflns.B_iso_Wilson_estimate 26.769 _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 1.70 1.75 9160 ? 2476 0.426 3.1 ? ? 3.7 ? ? 99.8 1 1 1.75 1.79 9182 ? 2450 0.365 3.7 ? ? 3.7 ? ? 99.6 2 1 1.79 1.85 8975 ? 2395 0.284 4.8 ? ? 3.7 ? ? 99.8 3 1 1.85 1.90 8649 ? 2309 0.297 5.1 ? ? 3.7 ? ? 99.4 4 1 1.90 1.96 8269 ? 2225 0.156 8.2 ? ? 3.7 ? ? 99.8 5 1 1.96 2.03 8122 ? 2162 0.125 9.9 ? ? 3.8 ? ? 99.8 6 1 2.03 2.11 9624 ? 2090 0.114 12.9 ? ? 4.6 ? ? 99.6 7 1 2.11 2.20 10783 ? 2034 0.102 16.1 ? ? 5.3 ? ? 99.7 8 1 2.20 2.29 11037 ? 1935 0.116 16.5 ? ? 5.7 ? ? 99.9 9 1 2.29 2.41 11938 ? 1841 0.080 22.6 ? ? 6.5 ? ? 99.9 10 1 2.41 2.54 13286 ? 1782 0.074 26.9 ? ? 7.5 ? ? 99.9 11 1 2.54 2.69 12237 ? 1649 0.062 31.3 ? ? 7.4 ? ? 100.0 12 1 2.69 2.88 11698 ? 1577 0.052 35.3 ? ? 7.4 ? ? 99.8 13 1 2.88 3.11 10738 ? 1453 0.048 40.1 ? ? 7.4 ? ? 99.9 14 1 3.11 3.40 10091 ? 1364 0.043 43.9 ? ? 7.4 ? ? 100.0 15 1 3.40 3.80 8987 ? 1220 0.043 45.5 ? ? 7.4 ? ? 99.8 16 1 3.80 4.39 7612 ? 1060 0.036 47.4 ? ? 7.2 ? ? 99.7 17 1 4.39 5.38 6422 ? 925 0.033 47.3 ? ? 6.9 ? ? 99.9 18 1 5.38 7.61 5069 ? 720 0.037 47.3 ? ? 7.0 ? ? 99.9 19 1 7.61 27.67 2116 ? 380 0.033 42.2 ? ? 5.6 ? ? 95.1 20 1 # _refine.entry_id 3SON _refine.ls_d_res_high 1.7100 _refine.ls_d_res_low 27.671 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.5900 _refine.ls_number_reflns_obs 33655 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details 'RANDOM + TWIN LAW' _refine.details ;1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. SOLVENT MOLECULES WERE EXCLUDED FROM THE AUTOMATIC ASSIGNMENT OF THE TLS GROUPS. 5. THE DIFFRACTION DATA SHOW MEROHEDERAL TWINNING WITH TWIN LAW "-H, K, -L". THE REFINED TWIN FRACTION WAS 0.26. THE R-FREE TEST SET REFLECTIONS WERE CHOSEN AT RANDOM WITH THE TWIN LAW INCLUDED. 6. BOTH SODIUM AND CALCIUM ARE PRESENT IN THE CRYSTALLIZATION SOLUTION / PROTEIN BUFFER. CALCIUM WAS MODELED BASED ON A SLIGHTLY BETTER FIT TO THE DENSITY BUT THE SITE COULD BE MIXED NA AND CA. 7. THE RAMACHANDRAN OUTLIER A60 IS IN A LOOP WITH WEAK ELECTRON DENSITY. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1651 _refine.ls_R_factor_R_work 0.1634 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.1960 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.2000 _refine.ls_number_reflns_R_free 1742 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 31.6546 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 14.3800 _refine.aniso_B[2][2] 14.3800 _refine.aniso_B[3][3] -28.7500 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9690 _refine.correlation_coeff_Fo_to_Fc_free 0.9610 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.0200 _refine.overall_SU_ML 0.0680 _refine.overall_SU_B 4.5090 _refine.solvent_model_details 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' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 107.070 _refine.B_iso_min 16.720 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.190 _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 2341 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 169 _refine_hist.number_atoms_total 2512 _refine_hist.d_res_high 1.7100 _refine_hist.d_res_low 27.671 # 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 2446 0.018 0.020 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 1580 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 3333 1.565 1.952 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 3863 0.901 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 300 6.196 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 120 31.297 25.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 373 11.753 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 8 11.448 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 367 0.103 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 2766 0.010 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 510 0.001 0.020 ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_restr_ncs.pdbx_refine_id _refine_ls_restr_ncs.pdbx_ens_id _refine_ls_restr_ncs.dom_id _refine_ls_restr_ncs.pdbx_type _refine_ls_restr_ncs.pdbx_auth_asym_id _refine_ls_restr_ncs.pdbx_number _refine_ls_restr_ncs.rms_dev_position _refine_ls_restr_ncs.weight_position _refine_ls_restr_ncs.pdbx_ordinal _refine_ls_restr_ncs.ncs_model_details _refine_ls_restr_ncs.rms_dev_B_iso _refine_ls_restr_ncs.weight_B_iso 'X-RAY DIFFRACTION' 1 1 'MEDIUM POSITIONAL' A 612 0.220 0.500 1 ? ? ? 'X-RAY DIFFRACTION' 1 1 'LOOSE POSITIONAL' A 930 0.490 5.000 2 ? ? ? 'X-RAY DIFFRACTION' 1 1 'MEDIUM THERMAL' A 612 4.790 2.000 3 ? ? ? 'X-RAY DIFFRACTION' 1 1 'LOOSE THERMAL' A 930 3.920 10.000 4 ? ? ? # _refine_ls_shell.d_res_high 1.7060 _refine_ls_shell.d_res_low 1.7500 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 97.8200 _refine_ls_shell.number_reflns_R_work 2320 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.1610 _refine_ls_shell.R_factor_R_free 0.2320 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 106 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 2426 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _struct_ncs_dom.pdbx_ens_id _struct_ncs_dom.id _struct_ncs_dom.details 1 1 A 1 2 B # loop_ _struct_ncs_dom_lim.pdbx_ens_id _struct_ncs_dom_lim.dom_id _struct_ncs_dom_lim.pdbx_component_id _struct_ncs_dom_lim.pdbx_refine_code _struct_ncs_dom_lim.beg_auth_asym_id _struct_ncs_dom_lim.beg_auth_seq_id _struct_ncs_dom_lim.end_auth_asym_id _struct_ncs_dom_lim.end_auth_seq_id _struct_ncs_dom_lim.selection_details _struct_ncs_dom_lim.beg_label_asym_id _struct_ncs_dom_lim.beg_label_comp_id _struct_ncs_dom_lim.beg_label_seq_id _struct_ncs_dom_lim.beg_label_alt_id _struct_ncs_dom_lim.end_label_asym_id _struct_ncs_dom_lim.end_label_comp_id _struct_ncs_dom_lim.end_label_seq_id _struct_ncs_dom_lim.end_label_alt_id 1 1 1 5 A 0 A 26 ? . . . . . . . . 1 2 1 5 B 0 B 26 ? . . . . . . . . 1 1 2 6 A 26 A 33 ? . . . . . . . . 1 2 2 6 B 26 B 33 ? . . . . . . . . 1 1 3 5 A 34 A 54 ? . . . . . . . . 1 2 3 5 B 34 B 54 ? . . . . . . . . 1 1 4 6 A 51 A 55 ? . . . . . . . . 1 2 4 6 B 51 B 55 ? . . . . . . . . 1 1 5 5 A 56 A 97 ? . . . . . . . . 1 2 5 5 B 56 B 97 ? . . . . . . . . 1 1 6 5 A 115 A 123 ? . . . . . . . . 1 2 6 5 B 115 B 123 ? . . . . . . . . 1 1 7 5 A 132 A 143 ? . . . . . . . . 1 2 7 5 B 132 B 143 ? . . . . . . . . # _struct_ncs_ens.id 1 _struct_ncs_ens.details ? # _struct.title 'Crystal structure of a putativel NUDIX hydrolase (LMOf2365_2679) from Listeria monocytogenes str. 4b F2365 at 1.70 A resolution' _struct.entry_id 3SON _struct.pdbx_model_type_details ? _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? # _struct_keywords.text 'Nudix, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, HYDROLASE' _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.entry_id 3SON # 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 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? # _struct_biol.id 1 _struct_biol.details 'ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE ASSIGNMENT OF A DIMER AS A SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION' # 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 ALA A 45 ? ASN A 59 ? ALA A 44 ASN A 58 1 ? 15 HELX_P HELX_P2 2 PHE A 78 ? PHE A 80 ? PHE A 77 PHE A 79 5 ? 3 HELX_P HELX_P3 3 CYS A 100 ? VAL A 104 ? CYS A 99 VAL A 103 5 ? 5 HELX_P HELX_P4 4 SER A 117 ? LEU A 125 ? SER A 116 LEU A 124 1 ? 9 HELX_P HELX_P5 5 TRP A 127 ? ASN A 143 ? TRP A 126 ASN A 142 1 ? 17 HELX_P HELX_P6 6 ALA B 45 ? ASN B 59 ? ALA B 44 ASN B 58 1 ? 15 HELX_P HELX_P7 7 PHE B 78 ? PHE B 80 ? PHE B 77 PHE B 79 5 ? 3 HELX_P HELX_P8 8 SER B 117 ? LEU B 125 ? SER B 116 LEU B 124 1 ? 9 HELX_P HELX_P9 9 TRP B 127 ? ASN B 143 ? TRP B 126 ASN B 142 1 ? 17 # _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 LYS 65 C ? ? ? 1_555 A MSE 66 N A ? A LYS 64 A MSE 65 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale2 covale both ? A LYS 65 C ? ? ? 1_555 A MSE 66 N B ? A LYS 64 A MSE 65 1_555 ? ? ? ? ? ? ? 1.345 ? ? covale3 covale both ? A MSE 66 C A ? ? 1_555 A TYR 67 N ? ? A MSE 65 A TYR 66 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale4 covale both ? A MSE 66 C B ? ? 1_555 A TYR 67 N ? ? A MSE 65 A TYR 66 1_555 ? ? ? ? ? ? ? 1.321 ? ? covale5 covale both ? A ASP 145 C ? ? ? 1_555 A MSE 146 N ? ? A ASP 144 A MSE 145 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale6 covale both ? A MSE 146 C ? ? ? 1_555 A LYS 147 N ? ? A MSE 145 A LYS 146 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale7 covale both ? A ALA 148 C A ? ? 1_555 A MSE 149 N A ? A ALA 147 A MSE 148 1_555 ? ? ? ? ? ? ? 1.345 ? ? covale8 covale both ? A ALA 148 C B ? ? 1_555 A MSE 149 N B ? A ALA 147 A MSE 148 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale9 covale both ? B LYS 65 C ? ? ? 1_555 B MSE 66 N ? ? B LYS 64 B MSE 65 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale10 covale both ? B MSE 66 C ? ? ? 1_555 B TYR 67 N ? ? B MSE 65 B TYR 66 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale11 covale both ? B ASP 145 C ? ? ? 1_555 B MSE 146 N ? ? B ASP 144 B MSE 145 1_555 ? ? ? ? ? ? ? 1.311 ? ? covale12 covale both ? B MSE 146 C ? ? ? 1_555 B LYS 147 N ? ? B MSE 145 B LYS 146 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale13 covale both ? B ALA 148 C ? ? ? 1_555 B MSE 149 N ? ? B ALA 147 B MSE 148 1_555 ? ? ? ? ? ? ? 1.326 ? ? metalc1 metalc ? ? A ALA 37 O ? ? ? 1_555 C CA . CA ? ? A ALA 36 A CA 201 1_555 ? ? ? ? ? ? ? 2.317 ? ? metalc2 metalc ? ? A GLU 53 OE1 ? ? ? 1_555 C CA . CA ? ? A GLU 52 A CA 201 1_555 ? ? ? ? ? ? ? 2.337 ? ? metalc3 metalc ? ? A GLU 57 OE2 ? ? ? 1_555 C CA . CA ? ? A GLU 56 A CA 201 1_555 ? ? ? ? ? ? ? 2.655 ? ? metalc4 metalc ? ? C CA . CA ? ? ? 1_555 E HOH . O ? ? A CA 201 A HOH 356 1_555 ? ? ? ? ? ? ? 2.149 ? ? metalc5 metalc ? ? C CA . CA ? ? ? 1_555 E HOH . O ? ? A CA 201 A HOH 415 1_555 ? ? ? ? ? ? ? 2.668 ? ? metalc6 metalc ? ? B ALA 37 O ? ? ? 1_555 D CA . CA ? ? B ALA 36 B CA 201 1_555 ? ? ? ? ? ? ? 2.353 ? ? metalc7 metalc ? ? B GLU 53 OE1 ? ? ? 1_555 D CA . CA ? ? B GLU 52 B CA 201 1_555 ? ? ? ? ? ? ? 2.659 ? ? metalc8 metalc ? ? B GLU 57 OE2 ? ? ? 1_555 D CA . CA ? ? B GLU 56 B CA 201 1_555 ? ? ? ? ? ? ? 2.556 ? ? metalc9 metalc ? ? B GLU 109 OE1 ? ? ? 1_555 D CA . CA ? ? B GLU 108 B CA 201 1_555 ? ? ? ? ? ? ? 2.959 ? ? metalc10 metalc ? ? D CA . CA ? ? ? 1_555 F HOH . O ? ? B CA 201 B HOH 403 1_555 ? ? ? ? ? ? ? 2.698 ? ? metalc11 metalc ? ? D CA . CA ? ? ? 1_555 F HOH . O ? ? B CA 201 B HOH 441 1_555 ? ? ? ? ? ? ? 3.067 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # 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 LYS 84 A . ? LYS 83 A PRO 85 A ? PRO 84 A 1 3.75 2 LYS 84 B . ? LYS 83 B PRO 85 B ? PRO 84 B 1 4.11 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 5 ? B ? 4 ? C ? 5 ? D ? 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 A 3 4 ? parallel A 4 5 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel C 3 4 ? parallel C 4 5 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel D 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 TRP A 33 ? GLN A 34 ? TRP A 32 GLN A 33 A 2 TYR A 20 ? ARG A 27 ? TYR A 19 ARG A 26 A 3 GLN A 7 ? LYS A 15 ? GLN A 6 LYS A 14 A 4 VAL A 87 ? ASP A 96 ? VAL A 86 ASP A 95 A 5 MSE A 66 ? PRO A 76 ? MSE A 65 PRO A 75 B 1 VAL A 36 ? GLY A 39 ? VAL A 35 GLY A 38 B 2 GLN A 7 ? LYS A 15 ? GLN A 6 LYS A 14 B 3 TYR A 20 ? ARG A 27 ? TYR A 19 ARG A 26 B 4 HIS A 110 ? VAL A 116 ? HIS A 109 VAL A 115 C 1 TRP B 33 ? GLN B 34 ? TRP B 32 GLN B 33 C 2 TYR B 20 ? HIS B 26 ? TYR B 19 HIS B 25 C 3 GLN B 7 ? LYS B 15 ? GLN B 6 LYS B 14 C 4 VAL B 87 ? ASP B 96 ? VAL B 86 ASP B 95 C 5 LYS B 65 ? PRO B 76 ? LYS B 64 PRO B 75 D 1 VAL B 36 ? GLY B 39 ? VAL B 35 GLY B 38 D 2 GLN B 7 ? LYS B 15 ? GLN B 6 LYS B 14 D 3 TYR B 20 ? HIS B 26 ? TYR B 19 HIS B 25 D 4 GLU B 112 ? VAL B 116 ? GLU B 111 VAL B 115 # 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 O GLN A 34 ? O GLN A 33 N LEU A 25 ? N LEU A 24 A 2 3 O GLN A 21 ? O GLN A 20 N ILE A 14 ? N ILE A 13 A 3 4 N ILE A 11 ? N ILE A 10 O PHE A 93 ? O PHE A 92 A 4 5 O GLU A 90 ? O GLU A 89 N ALA A 73 ? N ALA A 72 B 1 2 O GLY A 38 ? O GLY A 37 N VAL A 8 ? N VAL A 7 B 2 3 N ILE A 14 ? N ILE A 13 O GLN A 21 ? O GLN A 20 B 3 4 N PHE A 22 ? N PHE A 21 O VAL A 116 ? O VAL A 115 C 1 2 O GLN B 34 ? O GLN B 33 N LEU B 25 ? N LEU B 24 C 2 3 O GLY B 23 ? O GLY B 22 N PRO B 12 ? N PRO B 11 C 3 4 N GLN B 7 ? N GLN B 6 O PRO B 89 ? O PRO B 88 C 4 5 O ALA B 94 ? O ALA B 93 N TYR B 67 ? N TYR B 66 D 1 2 O VAL B 36 ? O VAL B 35 N VAL B 10 ? N VAL B 9 D 2 3 N PRO B 12 ? N PRO B 11 O GLY B 23 ? O GLY B 22 D 3 4 N PHE B 22 ? N PHE B 21 O VAL B 116 ? O VAL B 115 # 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 CA 201 ? 5 'BINDING SITE FOR RESIDUE CA A 201' AC2 Software B CA 201 ? 6 'BINDING SITE FOR RESIDUE CA B 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 5 ALA A 37 ? ALA A 36 . ? 1_555 ? 2 AC1 5 GLU A 53 ? GLU A 52 . ? 1_555 ? 3 AC1 5 GLU A 57 ? GLU A 56 . ? 1_555 ? 4 AC1 5 HOH E . ? HOH A 356 . ? 1_555 ? 5 AC1 5 HOH E . ? HOH A 415 . ? 1_555 ? 6 AC2 6 ALA B 37 ? ALA B 36 . ? 1_555 ? 7 AC2 6 GLU B 53 ? GLU B 52 . ? 1_555 ? 8 AC2 6 GLU B 57 ? GLU B 56 . ? 1_555 ? 9 AC2 6 GLU B 109 ? GLU B 108 . ? 1_555 ? 10 AC2 6 HOH F . ? HOH B 403 . ? 1_555 ? 11 AC2 6 HOH F . ? HOH B 441 . ? 1_555 ? # _atom_sites.entry_id 3SON _atom_sites.fract_transf_matrix[1][1] 0.017277 _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] 0.017277 _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] 0.010583 _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 CA 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 ARG 3 2 2 ARG ARG A . n A 1 4 GLN 4 3 3 GLN GLN A . n A 1 5 PRO 5 4 4 PRO PRO A . n A 1 6 PHE 6 5 5 PHE PHE A . n A 1 7 GLN 7 6 6 GLN GLN A . n A 1 8 VAL 8 7 7 VAL VAL A . n A 1 9 LEU 9 8 8 LEU LEU A . n A 1 10 VAL 10 9 9 VAL VAL A . n A 1 11 ILE 11 10 10 ILE ILE A . n A 1 12 PRO 12 11 11 PRO PRO A . n A 1 13 PHE 13 12 12 PHE PHE A . n A 1 14 ILE 14 13 13 ILE ILE A . n A 1 15 LYS 15 14 14 LYS LYS A . n A 1 16 THR 16 15 15 THR THR A . n A 1 17 GLU 17 16 16 GLU GLU A . n A 1 18 ALA 18 17 17 ALA ALA A . n A 1 19 ASN 19 18 18 ASN ASN A . n A 1 20 TYR 20 19 19 TYR TYR A . n A 1 21 GLN 21 20 20 GLN GLN A . n A 1 22 PHE 22 21 21 PHE PHE A . n A 1 23 GLY 23 22 22 GLY GLY A . n A 1 24 VAL 24 23 23 VAL VAL A . n A 1 25 LEU 25 24 24 LEU LEU A . n A 1 26 HIS 26 25 25 HIS HIS A . n A 1 27 ARG 27 26 26 ARG ARG A . n A 1 28 THR 28 27 27 THR THR A . n A 1 29 ASP 29 28 28 ASP ASP A . n A 1 30 ALA 30 29 29 ALA ALA A . n A 1 31 ASP 31 30 30 ASP ASP A . n A 1 32 VAL 32 31 31 VAL VAL A . n A 1 33 TRP 33 32 32 TRP TRP A . n A 1 34 GLN 34 33 33 GLN GLN A . n A 1 35 PHE 35 34 34 PHE PHE A . n A 1 36 VAL 36 35 35 VAL VAL A . n A 1 37 ALA 37 36 36 ALA ALA A . n A 1 38 GLY 38 37 37 GLY GLY A . n A 1 39 GLY 39 38 38 GLY GLY A . n A 1 40 GLY 40 39 39 GLY GLY A . n A 1 41 GLU 41 40 40 GLU GLU A . n A 1 42 ASP 42 41 41 ASP ASP A . n A 1 43 GLU 43 42 42 GLU GLU A . n A 1 44 GLU 44 43 43 GLU GLU A . n A 1 45 ALA 45 44 44 ALA ALA A . n A 1 46 ILE 46 45 45 ILE ILE A . n A 1 47 SER 47 46 46 SER SER A . n A 1 48 GLU 48 47 47 GLU GLU A . n A 1 49 THR 49 48 48 THR THR A . n A 1 50 ALA 50 49 49 ALA ALA A . n A 1 51 LYS 51 50 50 LYS LYS A . n A 1 52 ARG 52 51 51 ARG ARG A . n A 1 53 GLU 53 52 52 GLU GLU A . n A 1 54 SER 54 53 53 SER SER A . n A 1 55 ILE 55 54 54 ILE ILE A . n A 1 56 GLU 56 55 55 GLU GLU A . n A 1 57 GLU 57 56 56 GLU GLU A . n A 1 58 LEU 58 57 57 LEU LEU A . n A 1 59 ASN 59 58 58 ASN ASN A . n A 1 60 LEU 60 59 59 LEU LEU A . n A 1 61 ASP 61 60 60 ASP ASP A . n A 1 62 VAL 62 61 61 VAL VAL A . n A 1 63 ASP 63 62 62 ASP ASP A . n A 1 64 VAL 64 63 63 VAL VAL A . n A 1 65 LYS 65 64 64 LYS LYS A . n A 1 66 MSE 66 65 65 MSE MSE A . n A 1 67 TYR 67 66 66 TYR TYR A . n A 1 68 SER 68 67 67 SER SER A . n A 1 69 LEU 69 68 68 LEU LEU A . n A 1 70 ASP 70 69 69 ASP ASP A . n A 1 71 SER 71 70 70 SER SER A . n A 1 72 HIS 72 71 71 HIS HIS A . n A 1 73 ALA 73 72 72 ALA ALA A . n A 1 74 SER 74 73 73 SER SER A . n A 1 75 ILE 75 74 74 ILE ILE A . n A 1 76 PRO 76 75 75 PRO PRO A . n A 1 77 ASN 77 76 76 ASN ASN A . n A 1 78 PHE 78 77 77 PHE PHE A . n A 1 79 HIS 79 78 78 HIS HIS A . n A 1 80 PHE 80 79 79 PHE PHE A . n A 1 81 SER 81 80 80 SER SER A . n A 1 82 PHE 82 81 81 PHE PHE A . n A 1 83 ASN 83 82 82 ASN ASN A . n A 1 84 LYS 84 83 83 LYS LYS A . n A 1 85 PRO 85 84 84 PRO PRO A . n A 1 86 TYR 86 85 85 TYR TYR A . n A 1 87 VAL 87 86 86 VAL VAL A . n A 1 88 VAL 88 87 87 VAL VAL A . n A 1 89 PRO 89 88 88 PRO PRO A . n A 1 90 GLU 90 89 89 GLU GLU A . n A 1 91 TYR 91 90 90 TYR TYR A . n A 1 92 CYS 92 91 91 CYS CYS A . n A 1 93 PHE 93 92 92 PHE PHE A . n A 1 94 ALA 94 93 93 ALA ALA A . n A 1 95 ILE 95 94 94 ILE ILE A . n A 1 96 ASP 96 95 95 ASP ASP A . n A 1 97 LEU 97 96 96 LEU LEU A . n A 1 98 THR 98 97 97 THR THR A . n A 1 99 SER 99 98 98 SER SER A . n A 1 100 CYS 100 99 99 CYS CYS A . n A 1 101 SER 101 100 100 SER SER A . n A 1 102 TYR 102 101 101 TYR TYR A . n A 1 103 GLN 103 102 102 GLN GLN A . n A 1 104 VAL 104 103 103 VAL VAL A . n A 1 105 THR 105 104 104 THR THR A . n A 1 106 LEU 106 105 105 LEU LEU A . n A 1 107 SER 107 106 106 SER SER A . n A 1 108 LEU 108 107 107 LEU LEU A . n A 1 109 GLU 109 108 108 GLU GLU A . n A 1 110 HIS 110 109 109 HIS HIS A . n A 1 111 SER 111 110 110 SER SER A . n A 1 112 GLU 112 111 111 GLU GLU A . n A 1 113 LEU 113 112 112 LEU LEU A . n A 1 114 ARG 114 113 113 ARG ARG A . n A 1 115 TRP 115 114 114 TRP TRP A . n A 1 116 VAL 116 115 115 VAL VAL A . n A 1 117 SER 117 116 116 SER SER A . n A 1 118 TYR 118 117 117 TYR TYR A . n A 1 119 GLU 119 118 118 GLU GLU A . n A 1 120 SER 120 119 119 SER SER A . n A 1 121 ALA 121 120 120 ALA ALA A . n A 1 122 ILE 122 121 121 ILE ILE A . n A 1 123 GLN 123 122 122 GLN GLN A . n A 1 124 LEU 124 123 123 LEU LEU A . n A 1 125 LEU 125 124 124 LEU LEU A . n A 1 126 GLU 126 125 125 GLU GLU A . n A 1 127 TRP 127 126 126 TRP TRP A . n A 1 128 ASP 128 127 127 ASP ASP A . n A 1 129 SER 129 128 128 SER SER A . n A 1 130 ASN 130 129 129 ASN ASN A . n A 1 131 LYS 131 130 130 LYS LYS A . n A 1 132 THR 132 131 131 THR THR A . n A 1 133 ALA 133 132 132 ALA ALA A . n A 1 134 LEU 134 133 133 LEU LEU A . n A 1 135 TYR 135 134 134 TYR TYR A . n A 1 136 GLU 136 135 135 GLU GLU A . n A 1 137 LEU 137 136 136 LEU LEU A . n A 1 138 ASN 138 137 137 ASN ASN A . n A 1 139 GLU 139 138 138 GLU GLU A . n A 1 140 ARG 140 139 139 ARG ARG A . n A 1 141 LEU 141 140 140 LEU LEU A . n A 1 142 LYS 142 141 141 LYS LYS A . n A 1 143 ASN 143 142 142 ASN ASN A . n A 1 144 ASN 144 143 143 ASN ASN A . n A 1 145 ASP 145 144 144 ASP ASP A . n A 1 146 MSE 146 145 145 MSE MSE A . n A 1 147 LYS 147 146 146 LYS LYS A . n A 1 148 ALA 148 147 147 ALA ALA A . n A 1 149 MSE 149 148 148 MSE MSE A . n B 1 1 GLY 1 0 ? ? ? B . n B 1 2 MSE 2 1 ? ? ? B . n B 1 3 ARG 3 2 ? ? ? B . n B 1 4 GLN 4 3 3 GLN GLN B . n B 1 5 PRO 5 4 4 PRO PRO B . n B 1 6 PHE 6 5 5 PHE PHE B . n B 1 7 GLN 7 6 6 GLN GLN B . n B 1 8 VAL 8 7 7 VAL VAL B . n B 1 9 LEU 9 8 8 LEU LEU B . n B 1 10 VAL 10 9 9 VAL VAL B . n B 1 11 ILE 11 10 10 ILE ILE B . n B 1 12 PRO 12 11 11 PRO PRO B . n B 1 13 PHE 13 12 12 PHE PHE B . n B 1 14 ILE 14 13 13 ILE ILE B . n B 1 15 LYS 15 14 14 LYS LYS B . n B 1 16 THR 16 15 15 THR THR B . n B 1 17 GLU 17 16 16 GLU GLU B . n B 1 18 ALA 18 17 17 ALA ALA B . n B 1 19 ASN 19 18 18 ASN ASN B . n B 1 20 TYR 20 19 19 TYR TYR B . n B 1 21 GLN 21 20 20 GLN GLN B . n B 1 22 PHE 22 21 21 PHE PHE B . n B 1 23 GLY 23 22 22 GLY GLY B . n B 1 24 VAL 24 23 23 VAL VAL B . n B 1 25 LEU 25 24 24 LEU LEU B . n B 1 26 HIS 26 25 25 HIS HIS B . n B 1 27 ARG 27 26 26 ARG ARG B . n B 1 28 THR 28 27 27 THR THR B . n B 1 29 ASP 29 28 28 ASP ASP B . n B 1 30 ALA 30 29 29 ALA ALA B . n B 1 31 ASP 31 30 30 ASP ASP B . n B 1 32 VAL 32 31 31 VAL VAL B . n B 1 33 TRP 33 32 32 TRP TRP B . n B 1 34 GLN 34 33 33 GLN GLN B . n B 1 35 PHE 35 34 34 PHE PHE B . n B 1 36 VAL 36 35 35 VAL VAL B . n B 1 37 ALA 37 36 36 ALA ALA B . n B 1 38 GLY 38 37 37 GLY GLY B . n B 1 39 GLY 39 38 38 GLY GLY B . n B 1 40 GLY 40 39 39 GLY GLY B . n B 1 41 GLU 41 40 40 GLU GLU B . n B 1 42 ASP 42 41 41 ASP ASP B . n B 1 43 GLU 43 42 42 GLU GLU B . n B 1 44 GLU 44 43 43 GLU GLU B . n B 1 45 ALA 45 44 44 ALA ALA B . n B 1 46 ILE 46 45 45 ILE ILE B . n B 1 47 SER 47 46 46 SER SER B . n B 1 48 GLU 48 47 47 GLU GLU B . n B 1 49 THR 49 48 48 THR THR B . n B 1 50 ALA 50 49 49 ALA ALA B . n B 1 51 LYS 51 50 50 LYS LYS B . n B 1 52 ARG 52 51 51 ARG ARG B . n B 1 53 GLU 53 52 52 GLU GLU B . n B 1 54 SER 54 53 53 SER SER B . n B 1 55 ILE 55 54 54 ILE ILE B . n B 1 56 GLU 56 55 55 GLU GLU B . n B 1 57 GLU 57 56 56 GLU GLU B . n B 1 58 LEU 58 57 57 LEU LEU B . n B 1 59 ASN 59 58 58 ASN ASN B . n B 1 60 LEU 60 59 59 LEU LEU B . n B 1 61 ASP 61 60 60 ASP ASP B . n B 1 62 VAL 62 61 61 VAL VAL B . n B 1 63 ASP 63 62 62 ASP ASP B . n B 1 64 VAL 64 63 63 VAL VAL B . n B 1 65 LYS 65 64 64 LYS LYS B . n B 1 66 MSE 66 65 65 MSE MSE B . n B 1 67 TYR 67 66 66 TYR TYR B . n B 1 68 SER 68 67 67 SER SER B . n B 1 69 LEU 69 68 68 LEU LEU B . n B 1 70 ASP 70 69 69 ASP ASP B . n B 1 71 SER 71 70 70 SER SER B . n B 1 72 HIS 72 71 71 HIS HIS B . n B 1 73 ALA 73 72 72 ALA ALA B . n B 1 74 SER 74 73 73 SER SER B . n B 1 75 ILE 75 74 74 ILE ILE B . n B 1 76 PRO 76 75 75 PRO PRO B . n B 1 77 ASN 77 76 76 ASN ASN B . n B 1 78 PHE 78 77 77 PHE PHE B . n B 1 79 HIS 79 78 78 HIS HIS B . n B 1 80 PHE 80 79 79 PHE PHE B . n B 1 81 SER 81 80 80 SER SER B . n B 1 82 PHE 82 81 81 PHE PHE B . n B 1 83 ASN 83 82 82 ASN ASN B . n B 1 84 LYS 84 83 83 LYS LYS B . n B 1 85 PRO 85 84 84 PRO PRO B . n B 1 86 TYR 86 85 85 TYR TYR B . n B 1 87 VAL 87 86 86 VAL VAL B . n B 1 88 VAL 88 87 87 VAL VAL B . n B 1 89 PRO 89 88 88 PRO PRO B . n B 1 90 GLU 90 89 89 GLU GLU B . n B 1 91 TYR 91 90 90 TYR TYR B . n B 1 92 CYS 92 91 91 CYS CYS B . n B 1 93 PHE 93 92 92 PHE PHE B . n B 1 94 ALA 94 93 93 ALA ALA B . n B 1 95 ILE 95 94 94 ILE ILE B . n B 1 96 ASP 96 95 95 ASP ASP B . n B 1 97 LEU 97 96 96 LEU LEU B . n B 1 98 THR 98 97 97 THR THR B . n B 1 99 SER 99 98 98 SER SER B . n B 1 100 CYS 100 99 99 CYS CYS B . n B 1 101 SER 101 100 100 SER SER B . n B 1 102 TYR 102 101 101 TYR TYR B . n B 1 103 GLN 103 102 102 GLN GLN B . n B 1 104 VAL 104 103 103 VAL VAL B . n B 1 105 THR 105 104 104 THR THR B . n B 1 106 LEU 106 105 105 LEU LEU B . n B 1 107 SER 107 106 106 SER SER B . n B 1 108 LEU 108 107 107 LEU LEU B . n B 1 109 GLU 109 108 108 GLU GLU B . n B 1 110 HIS 110 109 109 HIS HIS B . n B 1 111 SER 111 110 110 SER SER B . n B 1 112 GLU 112 111 111 GLU GLU B . n B 1 113 LEU 113 112 112 LEU LEU B . n B 1 114 ARG 114 113 113 ARG ARG B . n B 1 115 TRP 115 114 114 TRP TRP B . n B 1 116 VAL 116 115 115 VAL VAL B . n B 1 117 SER 117 116 116 SER SER B . n B 1 118 TYR 118 117 117 TYR TYR B . n B 1 119 GLU 119 118 118 GLU GLU B . n B 1 120 SER 120 119 119 SER SER B . n B 1 121 ALA 121 120 120 ALA ALA B . n B 1 122 ILE 122 121 121 ILE ILE B . n B 1 123 GLN 123 122 122 GLN GLN B . n B 1 124 LEU 124 123 123 LEU LEU B . n B 1 125 LEU 125 124 124 LEU LEU B . n B 1 126 GLU 126 125 125 GLU GLU B . n B 1 127 TRP 127 126 126 TRP TRP B . n B 1 128 ASP 128 127 127 ASP ASP B . n B 1 129 SER 129 128 128 SER SER B . n B 1 130 ASN 130 129 129 ASN ASN B . n B 1 131 LYS 131 130 130 LYS LYS B . n B 1 132 THR 132 131 131 THR THR B . n B 1 133 ALA 133 132 132 ALA ALA B . n B 1 134 LEU 134 133 133 LEU LEU B . n B 1 135 TYR 135 134 134 TYR TYR B . n B 1 136 GLU 136 135 135 GLU GLU B . n B 1 137 LEU 137 136 136 LEU LEU B . n B 1 138 ASN 138 137 137 ASN ASN B . n B 1 139 GLU 139 138 138 GLU GLU B . n B 1 140 ARG 140 139 139 ARG ARG B . n B 1 141 LEU 141 140 140 LEU LEU B . n B 1 142 LYS 142 141 141 LYS LYS B . n B 1 143 ASN 143 142 142 ASN ASN B . n B 1 144 ASN 144 143 143 ASN ASN B . n B 1 145 ASP 145 144 144 ASP ASP B . n B 1 146 MSE 146 145 145 MSE MSE B . n B 1 147 LYS 147 146 146 LYS LYS B . n B 1 148 ALA 148 147 147 ALA ALA B . n B 1 149 MSE 149 148 148 MSE MSE B . 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 C 2 CA 1 201 201 CA CA A . D 2 CA 1 201 201 CA CA B . E 3 HOH 1 302 302 HOH HOH A . E 3 HOH 2 303 303 HOH HOH A . E 3 HOH 3 307 307 HOH HOH A . E 3 HOH 4 308 308 HOH HOH A . E 3 HOH 5 309 309 HOH HOH A . E 3 HOH 6 310 310 HOH HOH A . E 3 HOH 7 313 313 HOH HOH A . E 3 HOH 8 314 314 HOH HOH A . E 3 HOH 9 315 315 HOH HOH A . E 3 HOH 10 318 318 HOH HOH A . E 3 HOH 11 322 322 HOH HOH A . E 3 HOH 12 323 323 HOH HOH A . E 3 HOH 13 325 325 HOH HOH A . E 3 HOH 14 326 326 HOH HOH A . E 3 HOH 15 329 329 HOH HOH A . E 3 HOH 16 330 330 HOH HOH A . E 3 HOH 17 332 332 HOH HOH A . E 3 HOH 18 334 334 HOH HOH A . E 3 HOH 19 338 338 HOH HOH A . E 3 HOH 20 339 339 HOH HOH A . E 3 HOH 21 342 342 HOH HOH A . E 3 HOH 22 343 343 HOH HOH A . E 3 HOH 23 345 345 HOH HOH A . E 3 HOH 24 346 346 HOH HOH A . E 3 HOH 25 347 347 HOH HOH A . E 3 HOH 26 352 352 HOH HOH A . E 3 HOH 27 354 354 HOH HOH A . E 3 HOH 28 356 356 HOH HOH A . E 3 HOH 29 357 357 HOH HOH A . E 3 HOH 30 358 358 HOH HOH A . E 3 HOH 31 359 359 HOH HOH A . E 3 HOH 32 362 362 HOH HOH A . E 3 HOH 33 365 365 HOH HOH A . E 3 HOH 34 366 366 HOH HOH A . E 3 HOH 35 367 367 HOH HOH A . E 3 HOH 36 368 368 HOH HOH A . E 3 HOH 37 369 369 HOH HOH A . E 3 HOH 38 371 371 HOH HOH A . E 3 HOH 39 372 372 HOH HOH A . E 3 HOH 40 373 373 HOH HOH A . E 3 HOH 41 374 374 HOH HOH A . E 3 HOH 42 377 377 HOH HOH A . E 3 HOH 43 378 378 HOH HOH A . E 3 HOH 44 380 380 HOH HOH A . E 3 HOH 45 381 381 HOH HOH A . E 3 HOH 46 382 382 HOH HOH A . E 3 HOH 47 384 384 HOH HOH A . E 3 HOH 48 388 388 HOH HOH A . E 3 HOH 49 389 389 HOH HOH A . E 3 HOH 50 391 391 HOH HOH A . E 3 HOH 51 394 394 HOH HOH A . E 3 HOH 52 395 395 HOH HOH A . E 3 HOH 53 396 396 HOH HOH A . E 3 HOH 54 397 397 HOH HOH A . E 3 HOH 55 399 399 HOH HOH A . E 3 HOH 56 402 402 HOH HOH A . E 3 HOH 57 406 406 HOH HOH A . E 3 HOH 58 408 408 HOH HOH A . E 3 HOH 59 409 409 HOH HOH A . E 3 HOH 60 413 413 HOH HOH A . E 3 HOH 61 415 415 HOH HOH A . E 3 HOH 62 417 417 HOH HOH A . E 3 HOH 63 418 418 HOH HOH A . E 3 HOH 64 419 419 HOH HOH A . E 3 HOH 65 420 420 HOH HOH A . E 3 HOH 66 422 422 HOH HOH A . E 3 HOH 67 424 424 HOH HOH A . E 3 HOH 68 426 426 HOH HOH A . E 3 HOH 69 430 430 HOH HOH A . E 3 HOH 70 431 431 HOH HOH A . E 3 HOH 71 432 432 HOH HOH A . E 3 HOH 72 435 435 HOH HOH A . E 3 HOH 73 436 436 HOH HOH A . E 3 HOH 74 437 437 HOH HOH A . E 3 HOH 75 438 438 HOH HOH A . E 3 HOH 76 440 440 HOH HOH A . E 3 HOH 77 442 442 HOH HOH A . E 3 HOH 78 443 443 HOH HOH A . E 3 HOH 79 448 448 HOH HOH A . E 3 HOH 80 450 450 HOH HOH A . E 3 HOH 81 454 454 HOH HOH A . E 3 HOH 82 455 455 HOH HOH A . E 3 HOH 83 458 458 HOH HOH A . E 3 HOH 84 460 460 HOH HOH A . E 3 HOH 85 461 461 HOH HOH A . E 3 HOH 86 462 462 HOH HOH A . E 3 HOH 87 464 464 HOH HOH A . E 3 HOH 88 465 465 HOH HOH A . E 3 HOH 89 469 469 HOH HOH A . F 3 HOH 1 301 301 HOH HOH B . F 3 HOH 2 304 304 HOH HOH B . F 3 HOH 3 305 305 HOH HOH B . F 3 HOH 4 306 306 HOH HOH B . F 3 HOH 5 311 311 HOH HOH B . F 3 HOH 6 312 312 HOH HOH B . F 3 HOH 7 316 316 HOH HOH B . F 3 HOH 8 317 317 HOH HOH B . F 3 HOH 9 319 319 HOH HOH B . F 3 HOH 10 320 320 HOH HOH B . F 3 HOH 11 321 321 HOH HOH B . F 3 HOH 12 324 324 HOH HOH B . F 3 HOH 13 327 327 HOH HOH B . F 3 HOH 14 328 328 HOH HOH B . F 3 HOH 15 331 331 HOH HOH B . F 3 HOH 16 333 333 HOH HOH B . F 3 HOH 17 335 335 HOH HOH B . F 3 HOH 18 336 336 HOH HOH B . F 3 HOH 19 337 337 HOH HOH B . F 3 HOH 20 340 340 HOH HOH B . F 3 HOH 21 341 341 HOH HOH B . F 3 HOH 22 344 344 HOH HOH B . F 3 HOH 23 348 348 HOH HOH B . F 3 HOH 24 349 349 HOH HOH B . F 3 HOH 25 350 350 HOH HOH B . F 3 HOH 26 351 351 HOH HOH B . F 3 HOH 27 353 353 HOH HOH B . F 3 HOH 28 355 355 HOH HOH B . F 3 HOH 29 360 360 HOH HOH B . F 3 HOH 30 361 361 HOH HOH B . F 3 HOH 31 363 363 HOH HOH B . F 3 HOH 32 364 364 HOH HOH B . F 3 HOH 33 370 370 HOH HOH B . F 3 HOH 34 375 375 HOH HOH B . F 3 HOH 35 376 376 HOH HOH B . F 3 HOH 36 379 379 HOH HOH B . F 3 HOH 37 383 383 HOH HOH B . F 3 HOH 38 385 385 HOH HOH B . F 3 HOH 39 386 386 HOH HOH B . F 3 HOH 40 387 387 HOH HOH B . F 3 HOH 41 390 390 HOH HOH B . F 3 HOH 42 392 392 HOH HOH B . F 3 HOH 43 393 393 HOH HOH B . F 3 HOH 44 398 398 HOH HOH B . F 3 HOH 45 400 400 HOH HOH B . F 3 HOH 46 401 401 HOH HOH B . F 3 HOH 47 403 403 HOH HOH B . F 3 HOH 48 404 404 HOH HOH B . F 3 HOH 49 405 405 HOH HOH B . F 3 HOH 50 407 407 HOH HOH B . F 3 HOH 51 410 410 HOH HOH B . F 3 HOH 52 411 411 HOH HOH B . F 3 HOH 53 412 412 HOH HOH B . F 3 HOH 54 414 414 HOH HOH B . F 3 HOH 55 416 416 HOH HOH B . F 3 HOH 56 421 421 HOH HOH B . F 3 HOH 57 423 423 HOH HOH B . F 3 HOH 58 425 425 HOH HOH B . F 3 HOH 59 427 427 HOH HOH B . F 3 HOH 60 428 428 HOH HOH B . F 3 HOH 61 429 429 HOH HOH B . F 3 HOH 62 433 433 HOH HOH B . F 3 HOH 63 434 434 HOH HOH B . F 3 HOH 64 439 439 HOH HOH B . F 3 HOH 65 441 441 HOH HOH B . F 3 HOH 66 444 444 HOH HOH B . F 3 HOH 67 445 445 HOH HOH B . F 3 HOH 68 446 446 HOH HOH B . F 3 HOH 69 447 447 HOH HOH B . F 3 HOH 70 449 449 HOH HOH B . F 3 HOH 71 451 451 HOH HOH B . F 3 HOH 72 452 452 HOH HOH B . F 3 HOH 73 453 453 HOH HOH B . F 3 HOH 74 456 456 HOH HOH B . F 3 HOH 75 457 457 HOH HOH B . F 3 HOH 76 459 459 HOH HOH B . F 3 HOH 77 463 463 HOH HOH B . F 3 HOH 78 466 466 HOH HOH B . F 3 HOH 79 467 467 HOH HOH B . F 3 HOH 80 468 468 HOH HOH B . # 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 66 A MSE 65 ? MET SELENOMETHIONINE 2 A MSE 146 A MSE 145 ? MET SELENOMETHIONINE 3 A MSE 149 A MSE 148 ? MET SELENOMETHIONINE 4 B MSE 66 B MSE 65 ? MET SELENOMETHIONINE 5 B MSE 146 B MSE 145 ? MET SELENOMETHIONINE 6 B MSE 149 B MSE 148 ? 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 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # 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)' 1860 ? 1 MORE -30 ? 1 'SSA (A^2)' 14490 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? A ALA 37 ? A ALA 36 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 OE1 ? A GLU 53 ? A GLU 52 ? 1_555 89.8 ? 2 O ? A ALA 37 ? A ALA 36 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 OE2 ? A GLU 57 ? A GLU 56 ? 1_555 70.4 ? 3 OE1 ? A GLU 53 ? A GLU 52 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 OE2 ? A GLU 57 ? A GLU 56 ? 1_555 99.8 ? 4 O ? A ALA 37 ? A ALA 36 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 356 ? 1_555 156.1 ? 5 OE1 ? A GLU 53 ? A GLU 52 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 356 ? 1_555 72.2 ? 6 OE2 ? A GLU 57 ? A GLU 56 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 356 ? 1_555 127.0 ? 7 O ? A ALA 37 ? A ALA 36 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 415 ? 1_555 75.1 ? 8 OE1 ? A GLU 53 ? A GLU 52 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 415 ? 1_555 122.7 ? 9 OE2 ? A GLU 57 ? A GLU 56 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 415 ? 1_555 124.2 ? 10 O ? E HOH . ? A HOH 356 ? 1_555 CA ? C CA . ? A CA 201 ? 1_555 O ? E HOH . ? A HOH 415 ? 1_555 101.2 ? 11 O ? B ALA 37 ? B ALA 36 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE1 ? B GLU 53 ? B GLU 52 ? 1_555 82.0 ? 12 O ? B ALA 37 ? B ALA 36 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE2 ? B GLU 57 ? B GLU 56 ? 1_555 71.7 ? 13 OE1 ? B GLU 53 ? B GLU 52 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE2 ? B GLU 57 ? B GLU 56 ? 1_555 85.7 ? 14 O ? B ALA 37 ? B ALA 36 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE1 ? B GLU 109 ? B GLU 108 ? 1_555 118.8 ? 15 OE1 ? B GLU 53 ? B GLU 52 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE1 ? B GLU 109 ? B GLU 108 ? 1_555 158.2 ? 16 OE2 ? B GLU 57 ? B GLU 56 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 OE1 ? B GLU 109 ? B GLU 108 ? 1_555 94.5 ? 17 O ? B ALA 37 ? B ALA 36 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 403 ? 1_555 97.4 ? 18 OE1 ? B GLU 53 ? B GLU 52 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 403 ? 1_555 83.1 ? 19 OE2 ? B GLU 57 ? B GLU 56 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 403 ? 1_555 165.4 ? 20 OE1 ? B GLU 109 ? B GLU 108 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 403 ? 1_555 99.4 ? 21 O ? B ALA 37 ? B ALA 36 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 441 ? 1_555 65.4 ? 22 OE1 ? B GLU 53 ? B GLU 52 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 441 ? 1_555 143.3 ? 23 OE2 ? B GLU 57 ? B GLU 56 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 441 ? 1_555 69.0 ? 24 OE1 ? B GLU 109 ? B GLU 108 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 441 ? 1_555 54.3 ? 25 O ? F HOH . ? B HOH 403 ? 1_555 CA ? D CA . ? B CA 201 ? 1_555 O ? F HOH . ? B HOH 441 ? 1_555 116.1 ? # 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 2011-08-17 2 'Structure model' 1 1 2014-12-24 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2018-01-24 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' 'Structure summary' 2 3 'Structure model' 'Author supporting evidence' 3 3 'Structure model' 'Refinement description' 4 4 'Structure model' 'Database references' 5 5 'Structure model' 'Database references' 6 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' pdbx_struct_assembly_auth_evidence 2 3 'Structure model' software 3 4 'Structure model' citation_author 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 'Structure model' struct_ref_seq_dif 8 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' '_citation_author.name' 4 5 'Structure model' '_database_2.pdbx_DOI' 5 5 'Structure model' '_database_2.pdbx_database_accession' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.value' 19 5 'Structure model' '_struct_conn.pdbx_dist_value' 20 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 21 5 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 22 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 23 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 27 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 28 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 29 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 30 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 31 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 33 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 34 5 'Structure model' '_struct_ref_seq_dif.details' 35 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 36 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 37 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] 'X-RAY DIFFRACTION' 1 ? refined 20.9750 7.7920 61.7480 0.0047 0.0549 0.1526 0.0038 -0.0019 0.0372 0.9808 0.9541 1.1460 -0.0012 -0.4230 -0.3337 0.0030 0.0728 -0.0758 0.1309 0.0282 0.1048 -0.0032 -0.0607 -0.1024 'X-RAY DIFFRACTION' 2 ? refined 17.9720 8.0920 89.6070 0.0364 0.0168 0.1518 -0.0155 0.0439 0.0064 0.6592 1.2063 1.3999 0.1856 -0.0045 -0.1634 0.0941 -0.0417 -0.0524 -0.0221 0.0446 0.1051 0.0665 -0.1501 0.1413 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.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 'X-RAY DIFFRACTION' 1 1 A 2 A 148 ? . . . . ? 'X-RAY DIFFRACTION' 2 2 B 3 B 148 ? . . . . ? # _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 'June 12, 2007' ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html ? ? 6 REFMAC 5.6.0116 ? 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 3SON _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;1. THE CONSTRUCT WAS EXPRESSED WITH AN N-TERMINAL PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. 2. THE STRAIN CLONED (ATCC 19115 / 4b / Li 2) DIFFERS FROM THE STRAIN SEQUENCED IN THE DATABASE REFERENCE (serotype 4b strain F2365). DNA SEQUENCING OF THE CLONED CONSTRUCT SHOWS AN ISOLUCINE AT POSITION 121 INSTEAD OF A VALINE. THE ISOLUCINE AT POSITION 121 IS SUPPORTED BY THE ELECTRON DENSITY. ; _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 ASP A 41 ? ? 53.83 -120.38 2 1 ASP A 60 ? ? -56.68 -166.87 3 1 LYS A 83 ? ? -46.18 155.11 4 1 CYS A 99 ? ? -140.91 13.79 5 1 ASP B 41 ? ? 49.53 -127.93 6 1 LYS B 83 ? ? -45.77 155.36 7 1 HIS B 109 ? ? -172.25 131.40 # 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 ARG 2 ? N ? A ARG 3 N 2 1 Y 1 A ARG 2 ? CB ? A ARG 3 CB 3 1 Y 1 A ARG 2 ? CG ? A ARG 3 CG 4 1 Y 1 A ARG 2 ? CD ? A ARG 3 CD 5 1 Y 1 A ARG 2 ? NE ? A ARG 3 NE 6 1 Y 1 A ARG 2 ? CZ ? A ARG 3 CZ 7 1 Y 1 A ARG 2 ? NH1 ? A ARG 3 NH1 8 1 Y 1 A ARG 2 ? NH2 ? A ARG 3 NH2 9 1 Y 1 A GLN 3 ? CG ? A GLN 4 CG 10 1 Y 1 A GLN 3 ? CD ? A GLN 4 CD 11 1 Y 1 A GLN 3 ? OE1 ? A GLN 4 OE1 12 1 Y 1 A GLN 3 ? NE2 ? A GLN 4 NE2 13 1 Y 1 A GLU 16 ? CG ? A GLU 17 CG 14 1 Y 1 A GLU 16 ? CD ? A GLU 17 CD 15 1 Y 1 A GLU 16 ? OE1 ? A GLU 17 OE1 16 1 Y 1 A GLU 16 ? OE2 ? A GLU 17 OE2 17 1 Y 1 A GLU 42 ? CG ? A GLU 43 CG 18 1 Y 1 A GLU 42 ? CD ? A GLU 43 CD 19 1 Y 1 A GLU 42 ? OE1 ? A GLU 43 OE1 20 1 Y 1 A GLU 42 ? OE2 ? A GLU 43 OE2 21 1 Y 1 A LYS 64 ? CG ? A LYS 65 CG 22 1 Y 1 A LYS 64 ? CD ? A LYS 65 CD 23 1 Y 1 A LYS 64 ? CE ? A LYS 65 CE 24 1 Y 1 A LYS 64 ? NZ ? A LYS 65 NZ 25 1 Y 1 A LYS 83 ? NZ ? A LYS 84 NZ 26 1 Y 1 B GLN 3 ? N ? B GLN 4 N 27 1 Y 1 B GLN 3 ? CB ? B GLN 4 CB 28 1 Y 1 B GLN 3 ? CG ? B GLN 4 CG 29 1 Y 1 B GLN 3 ? CD ? B GLN 4 CD 30 1 Y 1 B GLN 3 ? OE1 ? B GLN 4 OE1 31 1 Y 1 B GLN 3 ? NE2 ? B GLN 4 NE2 32 1 Y 1 B LYS 14 ? CD ? B LYS 15 CD 33 1 Y 1 B LYS 14 ? CE ? B LYS 15 CE 34 1 Y 1 B LYS 14 ? NZ ? B LYS 15 NZ 35 1 Y 1 B GLU 16 ? CG ? B GLU 17 CG 36 1 Y 1 B GLU 16 ? CD ? B GLU 17 CD 37 1 Y 1 B GLU 16 ? OE1 ? B GLU 17 OE1 38 1 Y 1 B GLU 16 ? OE2 ? B GLU 17 OE2 39 1 Y 1 B GLU 42 ? CD ? B GLU 43 CD 40 1 Y 1 B GLU 42 ? OE1 ? B GLU 43 OE1 41 1 Y 1 B GLU 42 ? OE2 ? B GLU 43 OE2 42 1 Y 1 B ASP 60 ? CG ? B ASP 61 CG 43 1 Y 1 B ASP 60 ? OD1 ? B ASP 61 OD1 44 1 Y 1 B ASP 60 ? OD2 ? B ASP 61 OD2 45 1 Y 1 B ASP 62 ? CG ? B ASP 63 CG 46 1 Y 1 B ASP 62 ? OD1 ? B ASP 63 OD1 47 1 Y 1 B ASP 62 ? OD2 ? B ASP 63 OD2 48 1 Y 1 B LYS 83 ? NZ ? B LYS 84 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 MSE 1 ? A MSE 2 3 1 Y 1 B GLY 0 ? B GLY 1 4 1 Y 1 B MSE 1 ? B MSE 2 5 1 Y 1 B ARG 2 ? B ARG 3 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 water HOH # loop_ _pdbx_reflns_twin.domain_id _pdbx_reflns_twin.crystal_id _pdbx_reflns_twin.diffrn_id _pdbx_reflns_twin.fraction _pdbx_reflns_twin.operator _pdbx_reflns_twin.type _pdbx_reflns_twin.mean_F_square_over_mean_F2 _pdbx_reflns_twin.mean_I2_over_mean_I_square 1 1 1 0.738 'H, K, L' ? ? ? 2 1 1 0.262 '-H, K, -L' ? ? ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #