data_3NJF # _entry.id 3NJF # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 3NJF pdb_00003njf 10.2210/pdb3njf/pdb RCSB RCSB059904 ? ? WWPDB D_1000059904 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3N55 'wild-type SO1698 protein, an aspartic peptidase from Shewanella oneidensis.' unspecified PDB 3NJG . unspecified PDB 3NJH . unspecified PDB 3NJI . unspecified PDB 3NJJ . unspecified PDB 3NJK . unspecified PDB 3NJL . unspecified PDB 3NJM . unspecified PDB 3NJN . unspecified TargetDB APC83618 . unspecified # _pdbx_database_status.entry_id 3NJF _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-06-17 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Osipiuk, J.' 1 'Mulligan, R.' 2 'Bargassa, M.' 3 'Collart, F.' 4 'Joachimiak, A.' 5 'Midwest Center for Structural Genomics (MCSG)' 6 # _citation.id primary _citation.title 'Characterization of member of DUF1888 protein family, self-cleaving and self-assembling endopeptidase.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 287 _citation.page_first 19452 _citation.page_last 19461 _citation.year 2012 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22493430 _citation.pdbx_database_id_DOI 10.1074/jbc.M112.358069 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Osipiuk, J.' 1 ? primary 'Mulligan, R.' 2 ? primary 'Bargassa, M.' 3 ? primary 'Hamilton, J.E.' 4 ? primary 'Cunningham, M.A.' 5 ? primary 'Joachimiak, A.' 6 ? # _cell.length_a 100.166 _cell.length_b 100.166 _cell.length_c 100.824 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.entry_id 3NJF _cell.pdbx_unique_axis ? _cell.Z_PDB 18 _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.space_group_name_H-M 'H 3' _symmetry.entry_id 3NJF _symmetry.Int_Tables_number 146 _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 Peptidase 12648.341 2 ? Y26F 'N-terminal domain 1-116' ? 2 polymer man Peptidase 1080.217 2 ? ? 'C-terminal domain 117-125' ? 3 water nat water 18.015 70 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;SNAMFAPQGLAQFIKVNVTLENGEPVFIFTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVT ISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD ; ;SNAMFAPQGLAQFIKVNVTLENGEPVFIFTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVT ISSDGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD ; A,C APC83618 2 'polypeptide(L)' no no PQIINRPQN PQIINRPQN B,D APC83618 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 ALA n 1 4 MET n 1 5 PHE n 1 6 ALA n 1 7 PRO n 1 8 GLN n 1 9 GLY n 1 10 LEU n 1 11 ALA n 1 12 GLN n 1 13 PHE n 1 14 ILE n 1 15 LYS n 1 16 VAL n 1 17 ASN n 1 18 VAL n 1 19 THR n 1 20 LEU n 1 21 GLU n 1 22 ASN n 1 23 GLY n 1 24 GLU n 1 25 PRO n 1 26 VAL n 1 27 PHE n 1 28 ILE n 1 29 PHE n 1 30 THR n 1 31 ASP n 1 32 ALA n 1 33 ASN n 1 34 GLY n 1 35 GLN n 1 36 VAL n 1 37 CYS n 1 38 GLN n 1 39 GLY n 1 40 ASP n 1 41 ILE n 1 42 THR n 1 43 VAL n 1 44 THR n 1 45 GLN n 1 46 ALA n 1 47 GLY n 1 48 THR n 1 49 ILE n 1 50 THR n 1 51 TYR n 1 52 LEU n 1 53 LEU n 1 54 ASN n 1 55 ASP n 1 56 GLN n 1 57 THR n 1 58 LEU n 1 59 LYS n 1 60 GLY n 1 61 LEU n 1 62 LYS n 1 63 PHE n 1 64 VAL n 1 65 GLY n 1 66 VAL n 1 67 GLY n 1 68 PHE n 1 69 VAL n 1 70 THR n 1 71 PRO n 1 72 PHE n 1 73 ASP n 1 74 GLY n 1 75 ILE n 1 76 ILE n 1 77 ASP n 1 78 ALA n 1 79 VAL n 1 80 THR n 1 81 ILE n 1 82 SER n 1 83 SER n 1 84 ASP n 1 85 GLY n 1 86 MET n 1 87 LEU n 1 88 VAL n 1 89 GLN n 1 90 LEU n 1 91 VAL n 1 92 ASP n 1 93 LEU n 1 94 ASP n 1 95 LYS n 1 96 THR n 1 97 PRO n 1 98 GLY n 1 99 THR n 1 100 THR n 1 101 LYS n 1 102 PHE n 1 103 GLN n 1 104 PHE n 1 105 VAL n 1 106 LEU n 1 107 SER n 1 108 ASN n 1 109 THR n 1 110 ALA n 1 111 ASN n 1 112 THR n 1 113 LEU n 1 114 LEU n 1 115 VAL n 1 116 LEU n 1 117 SER n 1 118 PRO n 1 119 ASP n 2 1 PRO n 2 2 GLN n 2 3 ILE n 2 4 ILE n 2 5 ASN n 2 6 ARG n 2 7 PRO n 2 8 GLN n 2 9 ASN n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _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 _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 _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _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 _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _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 _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 _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample ? ? ? ? ? SO_1698 ? MR-1 ? ? ? ? 'Shewanella oneidensis' 70863 ? ? ? ? ? ? ? ? 'Escherichia coli' 469008 ? ? ? ? ? ? 'BL21(DE3)' ? ? ? ? ? ? ? plasmid ? ? ? pMCSG7 ? ? 2 1 sample ? ? ? ? ? SO_1698 ? MR-1 ? ? ? ? 'Shewanella oneidensis' 70863 ? ? ? ? ? ? ? ? 'Escherichia coli' 469008 ? ? ? ? ? ? 'BL21(DE3)' ? ? ? ? ? ? ? plasmid ? ? ? pMCSG7 ? ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP Q8EGA7_SHEON Q8EGA7 1 ;MFAPQGLAQFIKVNVTLENGEPVFIYTDANGQVCQGDITVTQAGTITYLLNDQTLKGLKFVGVGFVTPFDGIIDAVTISS DGMLVQLVDLDKTPGTTKFQFVLSNTANTLLVLSPD ; 1 ? 2 UNP Q8EGA7_SHEON Q8EGA7 2 PQIINRPQN 117 ? # 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 3NJF A 4 ? 119 ? Q8EGA7 1 ? 116 ? 1 116 2 2 3NJF B 1 ? 9 ? Q8EGA7 117 ? 125 ? 117 125 3 1 3NJF C 4 ? 119 ? Q8EGA7 1 ? 116 ? 1 116 4 2 3NJF D 1 ? 9 ? Q8EGA7 117 ? 125 ? 117 125 # 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 3NJF SER A 1 ? UNP Q8EGA7 ? ? 'expression tag' -2 1 1 3NJF ASN A 2 ? UNP Q8EGA7 ? ? 'expression tag' -1 2 1 3NJF ALA A 3 ? UNP Q8EGA7 ? ? 'expression tag' 0 3 1 3NJF PHE A 29 ? UNP Q8EGA7 TYR 26 'engineered mutation' 26 4 3 3NJF SER C 1 ? UNP Q8EGA7 ? ? 'expression tag' -2 5 3 3NJF ASN C 2 ? UNP Q8EGA7 ? ? 'expression tag' -1 6 3 3NJF ALA C 3 ? UNP Q8EGA7 ? ? 'expression tag' 0 7 3 3NJF PHE C 29 ? UNP Q8EGA7 TYR 26 'engineered mutation' 26 8 # 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 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 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.entry_id 3NJF _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 3.55 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 65.30 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 6.2 _exptl_crystal_grow.temp 291 _exptl_crystal_grow.pdbx_details '10% PEG-3000, 0.1 M sodium/potassium phosphate, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 291K' _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 SBC-3 _diffrn_detector.pdbx_collection_date 2008-01-31 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator 'double crystal monochromator' _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9792 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-BM' _diffrn_source.pdbx_wavelength_list 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-BM # _reflns.entry_id 3NJF _reflns.d_resolution_high 2.470 _reflns.d_resolution_low 31.2 _reflns.number_obs 13378 _reflns.pdbx_Rmerge_I_obs 0.108 _reflns.pdbx_netI_over_sigmaI 7.600 _reflns.pdbx_chi_squared 1.998 _reflns.pdbx_redundancy 4.600 _reflns.percent_possible_obs 99.300 _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.number_all 13378 _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate 72.2 _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_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.470 2.510 ? ? ? 0.676 2.11 ? 1.071 4.500 ? 660 100.000 1 1 2.510 2.560 ? ? ? 0.674 ? ? 1.188 4.700 ? 679 100.000 2 1 2.560 2.610 ? ? ? 0.834 ? ? 1.368 4.900 ? 688 100.000 3 1 2.610 2.660 ? ? ? 0.551 ? ? 1.258 5.000 ? 659 100.000 4 1 2.660 2.720 ? ? ? 0.627 ? ? 1.569 5.100 ? 676 100.000 5 1 2.720 2.780 ? ? ? 0.487 ? ? 1.497 5.200 ? 694 100.000 6 1 2.780 2.850 ? ? ? 0.444 ? ? 1.708 5.200 ? 663 100.000 7 1 2.850 2.930 ? ? ? 0.349 ? ? 1.818 5.300 ? 663 100.000 8 1 2.930 3.010 ? ? ? 0.306 ? ? 2.147 5.200 ? 684 100.000 9 1 3.010 3.110 ? ? ? 0.262 ? ? 2.799 5.100 ? 671 100.000 10 1 3.110 3.220 ? ? ? 0.212 ? ? 2.779 5.000 ? 673 100.000 11 1 3.220 3.350 ? ? ? 0.200 ? ? 2.646 4.800 ? 680 100.000 12 1 3.350 3.500 ? ? ? 0.187 ? ? 3.202 4.300 ? 650 98.900 13 1 3.500 3.690 ? ? ? 0.105 ? ? 2.496 4.400 ? 682 99.400 14 1 3.690 3.920 ? ? ? 0.104 ? ? 2.649 3.800 ? 642 95.000 15 1 3.920 4.220 ? ? ? 0.083 ? ? 2.398 3.700 ? 643 95.800 16 1 4.220 4.650 ? ? ? 0.071 ? ? 2.058 4.100 ? 667 99.900 17 1 4.650 5.320 ? ? ? 0.064 ? ? 2.112 3.900 ? 664 99.400 18 1 5.320 6.700 ? ? ? 0.072 ? ? 2.203 3.500 ? 679 98.400 19 1 6.700 50.000 ? ? ? 0.054 ? ? 1.646 5.100 ? 661 98.800 20 1 # _refine.entry_id 3NJF _refine.ls_d_res_high 2.4700 _refine.ls_d_res_low 31.2 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 95.7600 _refine.ls_number_reflns_obs 12905 _refine.ls_number_reflns_all 12905 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : RESIDUAL ONLY' _refine.ls_R_factor_all 0.2234 _refine.ls_R_factor_obs 0.2234 _refine.ls_R_factor_R_work 0.2211 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2671 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.0000 _refine.ls_number_reflns_R_free 642 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 52.990 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.5200 _refine.aniso_B[2][2] 0.5200 _refine.aniso_B[3][3] -0.7800 _refine.aniso_B[1][2] 0.2600 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9520 _refine.correlation_coeff_Fo_to_Fc_free 0.9360 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.2680 _refine.overall_SU_ML 0.1910 _refine.overall_SU_B 19.5200 _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 3N55 _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 70.710 _refine.B_iso_min 22.800 _refine.occupancy_max 1.000 _refine.occupancy_min 0.400 _refine.pdbx_ls_sigma_I 0 _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R 0.360 _refine.pdbx_diffrn_id 1 _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 1794 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 70 _refine_hist.number_atoms_total 1864 _refine_hist.d_res_high 2.4700 _refine_hist.d_res_low 31.2 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 1860 0.018 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 1186 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2542 1.667 1.968 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 2962 0.940 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 246 6.630 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 78 43.323 27.179 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 312 17.841 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 2 8.527 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 320 0.088 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 2060 0.006 0.021 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 326 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1194 0.794 1.500 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 494 0.133 1.500 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1958 1.466 2.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 666 1.934 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 578 3.004 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.4740 _refine_ls_shell.d_res_low 2.5380 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 98.7800 _refine_ls_shell.number_reflns_R_work 913 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.3570 _refine_ls_shell.R_factor_R_free 0.4660 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 62 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 975 _refine_ls_shell.number_reflns_obs 975 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3NJF _struct.title 'Y26F mutant of SO1698 protein, an aspartic peptidase from Shewanella oneidensis' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3NJF _struct_keywords.text ;STRUCTURAL GENOMICS, ASPARTIC PEPTIDASE, AUTOCATALYSIS, PSI-2, PROTEIN STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, HYDROLASE ; _struct_keywords.pdbx_keywords HYDROLASE # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 1 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 3 ? # _struct_biol.id 1 _struct_biol.details ? # 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 one ? A LYS 101 NZ ? ? ? 1_555 A ASP 119 C ? ? A LYS 98 A ASP 116 1_555 ? ? ? ? ? ? ? 1.558 ? ? covale2 covale one ? C LYS 101 NZ ? ? ? 1_555 C ASP 119 C ? ? C LYS 98 C ASP 116 1_555 ? ? ? ? ? ? ? 1.382 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 12 ? B ? 6 ? C ? 4 ? D ? 4 ? E ? 4 ? F ? 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 A 5 6 ? anti-parallel A 6 7 ? anti-parallel A 7 8 ? anti-parallel A 8 9 ? anti-parallel A 9 10 ? parallel A 10 11 ? anti-parallel A 11 12 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel B 4 5 ? anti-parallel B 5 6 ? anti-parallel C 1 2 ? parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel D 1 2 ? parallel D 2 3 ? anti-parallel D 3 4 ? anti-parallel E 1 2 ? parallel E 2 3 ? anti-parallel E 3 4 ? anti-parallel F 1 2 ? parallel F 2 3 ? anti-parallel F 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 VAL A 36 ? CYS A 37 ? VAL A 33 CYS A 34 A 2 GLU A 24 ? THR A 30 ? GLU A 21 THR A 27 A 3 GLY A 9 ? GLU A 21 ? GLY A 6 GLU A 18 A 4 GLY A 47 ? ASP A 55 ? GLY A 44 ASP A 52 A 5 LEU A 87 ? ASP A 92 ? LEU A 84 ASP A 89 A 6 ALA A 78 ? ILE A 81 ? ALA A 75 ILE A 78 A 7 ALA C 78 ? ILE C 81 ? ALA C 75 ILE C 78 A 8 LEU C 87 ? ASP C 92 ? LEU C 84 ASP C 89 A 9 GLY C 47 ? ASP C 55 ? GLY C 44 ASP C 52 A 10 GLY C 9 ? GLU C 21 ? GLY C 6 GLU C 18 A 11 GLU C 24 ? THR C 30 ? GLU C 21 THR C 27 A 12 VAL C 36 ? CYS C 37 ? VAL C 33 CYS C 34 B 1 VAL A 36 ? CYS A 37 ? VAL A 33 CYS A 34 B 2 GLU A 24 ? THR A 30 ? GLU A 21 THR A 27 B 3 GLY A 9 ? GLU A 21 ? GLY A 6 GLU A 18 B 4 GLY C 9 ? GLU C 21 ? GLY C 6 GLU C 18 B 5 GLU C 24 ? THR C 30 ? GLU C 21 THR C 27 B 6 VAL C 36 ? CYS C 37 ? VAL C 33 CYS C 34 C 1 ILE A 41 ? VAL A 43 ? ILE A 38 VAL A 40 C 2 GLN B 2 ? ASN B 5 ? GLN B 118 ASN B 121 C 3 GLY A 98 ? SER A 107 ? GLY A 95 SER A 104 C 4 LYS A 62 ? PHE A 68 ? LYS A 59 PHE A 65 D 1 ILE A 41 ? VAL A 43 ? ILE A 38 VAL A 40 D 2 GLN B 2 ? ASN B 5 ? GLN B 118 ASN B 121 D 3 GLY A 98 ? SER A 107 ? GLY A 95 SER A 104 D 4 VAL A 115 ? LEU A 116 ? VAL A 112 LEU A 113 E 1 ILE C 41 ? VAL C 43 ? ILE C 38 VAL C 40 E 2 GLN D 2 ? ASN D 5 ? GLN D 118 ASN D 121 E 3 GLY C 98 ? SER C 107 ? GLY C 95 SER C 104 E 4 LYS C 62 ? PHE C 68 ? LYS C 59 PHE C 65 F 1 ILE C 41 ? VAL C 43 ? ILE C 38 VAL C 40 F 2 GLN D 2 ? ASN D 5 ? GLN D 118 ASN D 121 F 3 GLY C 98 ? SER C 107 ? GLY C 95 SER C 104 F 4 VAL C 115 ? LEU C 116 ? VAL C 112 LEU C 113 # 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 CYS A 37 ? O CYS A 34 N PHE A 29 ? N PHE A 26 A 2 3 O ILE A 28 ? O ILE A 25 N ASN A 17 ? N ASN A 14 A 3 4 N VAL A 16 ? N VAL A 13 O ASN A 54 ? O ASN A 51 A 4 5 N TYR A 51 ? N TYR A 48 O VAL A 88 ? O VAL A 85 A 5 6 O GLN A 89 ? O GLN A 86 N THR A 80 ? N THR A 77 A 6 7 N ILE A 81 ? N ILE A 78 O ILE C 81 ? O ILE C 78 A 7 8 N THR C 80 ? N THR C 77 O GLN C 89 ? O GLN C 86 A 8 9 O ASP C 92 ? O ASP C 89 N GLY C 47 ? N GLY C 44 A 9 10 O ASN C 54 ? O ASN C 51 N VAL C 16 ? N VAL C 13 A 10 11 N ASN C 17 ? N ASN C 14 O ILE C 28 ? O ILE C 25 A 11 12 N PHE C 29 ? N PHE C 26 O CYS C 37 ? O CYS C 34 B 1 2 O CYS A 37 ? O CYS A 34 N PHE A 29 ? N PHE A 26 B 2 3 O ILE A 28 ? O ILE A 25 N ASN A 17 ? N ASN A 14 B 3 4 N ALA A 11 ? N ALA A 8 O GLY C 9 ? O GLY C 6 B 4 5 N ASN C 17 ? N ASN C 14 O ILE C 28 ? O ILE C 25 B 5 6 N PHE C 29 ? N PHE C 26 O CYS C 37 ? O CYS C 34 C 1 2 N VAL A 43 ? N VAL A 40 O ILE B 4 ? O ILE B 120 C 2 3 O ILE B 3 ? O ILE B 119 N THR A 100 ? N THR A 97 C 3 4 O GLN A 103 ? O GLN A 100 N GLY A 67 ? N GLY A 64 D 1 2 N VAL A 43 ? N VAL A 40 O ILE B 4 ? O ILE B 120 D 2 3 O ILE B 3 ? O ILE B 119 N THR A 100 ? N THR A 97 D 3 4 N LEU A 106 ? N LEU A 103 O VAL A 115 ? O VAL A 112 E 1 2 N VAL C 43 ? N VAL C 40 O ILE D 4 ? O ILE D 120 E 2 3 O ILE D 3 ? O ILE D 119 N THR C 100 ? N THR C 97 E 3 4 O GLN C 103 ? O GLN C 100 N GLY C 67 ? N GLY C 64 F 1 2 N VAL C 43 ? N VAL C 40 O ILE D 4 ? O ILE D 120 F 2 3 O ILE D 3 ? O ILE D 119 N THR C 100 ? N THR C 97 F 3 4 N LEU C 106 ? N LEU C 103 O VAL C 115 ? O VAL C 112 # _atom_sites.entry_id 3NJF _atom_sites.fract_transf_matrix[1][1] 0.009983 _atom_sites.fract_transf_matrix[1][2] 0.005764 _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] 0.011528 _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] 0.009918 _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 # 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 SER 1 -2 ? ? ? A . n A 1 2 ASN 2 -1 ? ? ? A . n A 1 3 ALA 3 0 ? ? ? A . n A 1 4 MET 4 1 ? ? ? A . n A 1 5 PHE 5 2 ? ? ? A . n A 1 6 ALA 6 3 ? ? ? A . n A 1 7 PRO 7 4 ? ? ? A . n A 1 8 GLN 8 5 5 GLN GLN A . n A 1 9 GLY 9 6 6 GLY GLY A . n A 1 10 LEU 10 7 7 LEU LEU A . n A 1 11 ALA 11 8 8 ALA ALA A . n A 1 12 GLN 12 9 9 GLN GLN A . n A 1 13 PHE 13 10 10 PHE PHE A . n A 1 14 ILE 14 11 11 ILE ILE A . n A 1 15 LYS 15 12 12 LYS LYS A . n A 1 16 VAL 16 13 13 VAL VAL A . n A 1 17 ASN 17 14 14 ASN ASN A . n A 1 18 VAL 18 15 15 VAL VAL A . n A 1 19 THR 19 16 16 THR THR A . n A 1 20 LEU 20 17 17 LEU LEU A . n A 1 21 GLU 21 18 18 GLU GLU A . n A 1 22 ASN 22 19 19 ASN ASN A . n A 1 23 GLY 23 20 20 GLY GLY A . n A 1 24 GLU 24 21 21 GLU GLU A . n A 1 25 PRO 25 22 22 PRO PRO A . n A 1 26 VAL 26 23 23 VAL VAL A . n A 1 27 PHE 27 24 24 PHE PHE A . n A 1 28 ILE 28 25 25 ILE ILE A . n A 1 29 PHE 29 26 26 PHE PHE A . n A 1 30 THR 30 27 27 THR THR A . n A 1 31 ASP 31 28 28 ASP ASP A . n A 1 32 ALA 32 29 29 ALA ALA A . n A 1 33 ASN 33 30 30 ASN ASN A . n A 1 34 GLY 34 31 31 GLY GLY A . n A 1 35 GLN 35 32 32 GLN GLN A . n A 1 36 VAL 36 33 33 VAL VAL A . n A 1 37 CYS 37 34 34 CYS CYS A . n A 1 38 GLN 38 35 35 GLN GLN A . n A 1 39 GLY 39 36 36 GLY GLY A . n A 1 40 ASP 40 37 37 ASP ASP A . n A 1 41 ILE 41 38 38 ILE ILE A . n A 1 42 THR 42 39 39 THR THR A . n A 1 43 VAL 43 40 40 VAL VAL A . n A 1 44 THR 44 41 41 THR THR A . n A 1 45 GLN 45 42 42 GLN GLN A . n A 1 46 ALA 46 43 43 ALA ALA A . n A 1 47 GLY 47 44 44 GLY GLY A . n A 1 48 THR 48 45 45 THR THR A . n A 1 49 ILE 49 46 46 ILE ILE A . n A 1 50 THR 50 47 47 THR THR A . n A 1 51 TYR 51 48 48 TYR TYR A . n A 1 52 LEU 52 49 49 LEU LEU A . n A 1 53 LEU 53 50 50 LEU LEU A . n A 1 54 ASN 54 51 51 ASN ASN A . n A 1 55 ASP 55 52 52 ASP ASP A . n A 1 56 GLN 56 53 53 GLN GLN A . n A 1 57 THR 57 54 54 THR THR A . n A 1 58 LEU 58 55 55 LEU LEU A . n A 1 59 LYS 59 56 56 LYS LYS A . n A 1 60 GLY 60 57 57 GLY GLY A . n A 1 61 LEU 61 58 58 LEU LEU A . n A 1 62 LYS 62 59 59 LYS LYS A . n A 1 63 PHE 63 60 60 PHE PHE A . n A 1 64 VAL 64 61 61 VAL VAL A . n A 1 65 GLY 65 62 62 GLY GLY A . n A 1 66 VAL 66 63 63 VAL VAL A . n A 1 67 GLY 67 64 64 GLY GLY A . n A 1 68 PHE 68 65 65 PHE PHE A . n A 1 69 VAL 69 66 66 VAL VAL A . n A 1 70 THR 70 67 67 THR THR A . n A 1 71 PRO 71 68 68 PRO PRO A . n A 1 72 PHE 72 69 69 PHE PHE A . n A 1 73 ASP 73 70 70 ASP ASP A . n A 1 74 GLY 74 71 71 GLY GLY A . n A 1 75 ILE 75 72 72 ILE ILE A . n A 1 76 ILE 76 73 73 ILE ILE A . n A 1 77 ASP 77 74 74 ASP ASP A . n A 1 78 ALA 78 75 75 ALA ALA A . n A 1 79 VAL 79 76 76 VAL VAL A . n A 1 80 THR 80 77 77 THR THR A . n A 1 81 ILE 81 78 78 ILE ILE A . n A 1 82 SER 82 79 79 SER SER A . n A 1 83 SER 83 80 80 SER SER A . n A 1 84 ASP 84 81 81 ASP ASP A . n A 1 85 GLY 85 82 82 GLY GLY A . n A 1 86 MET 86 83 83 MET MET A . n A 1 87 LEU 87 84 84 LEU LEU A . n A 1 88 VAL 88 85 85 VAL VAL A . n A 1 89 GLN 89 86 86 GLN GLN A . n A 1 90 LEU 90 87 87 LEU LEU A . n A 1 91 VAL 91 88 88 VAL VAL A . n A 1 92 ASP 92 89 89 ASP ASP A . n A 1 93 LEU 93 90 90 LEU LEU A . n A 1 94 ASP 94 91 91 ASP ASP A . n A 1 95 LYS 95 92 92 LYS LYS A . n A 1 96 THR 96 93 93 THR THR A . n A 1 97 PRO 97 94 94 PRO PRO A . n A 1 98 GLY 98 95 95 GLY GLY A . n A 1 99 THR 99 96 96 THR THR A . n A 1 100 THR 100 97 97 THR THR A . n A 1 101 LYS 101 98 98 LYS LYS A . n A 1 102 PHE 102 99 99 PHE PHE A . n A 1 103 GLN 103 100 100 GLN GLN A . n A 1 104 PHE 104 101 101 PHE PHE A . n A 1 105 VAL 105 102 102 VAL VAL A . n A 1 106 LEU 106 103 103 LEU LEU A . n A 1 107 SER 107 104 104 SER SER A . n A 1 108 ASN 108 105 105 ASN ASN A . n A 1 109 THR 109 106 106 THR THR A . n A 1 110 ALA 110 107 107 ALA ALA A . n A 1 111 ASN 111 108 108 ASN ASN A . n A 1 112 THR 112 109 109 THR THR A . n A 1 113 LEU 113 110 110 LEU LEU A . n A 1 114 LEU 114 111 111 LEU LEU A . n A 1 115 VAL 115 112 112 VAL VAL A . n A 1 116 LEU 116 113 113 LEU LEU A . n A 1 117 SER 117 114 114 SER SER A . n A 1 118 PRO 118 115 115 PRO PRO A . n A 1 119 ASP 119 116 116 ASP ASP A . n B 2 1 PRO 1 117 117 PRO PRO B . n B 2 2 GLN 2 118 118 GLN GLN B . n B 2 3 ILE 3 119 119 ILE ILE B . n B 2 4 ILE 4 120 120 ILE ILE B . n B 2 5 ASN 5 121 121 ASN ASN B . n B 2 6 ARG 6 122 122 ARG ARG B . n B 2 7 PRO 7 123 123 PRO PRO B . n B 2 8 GLN 8 124 ? ? ? B . n B 2 9 ASN 9 125 ? ? ? B . n C 1 1 SER 1 -2 ? ? ? C . n C 1 2 ASN 2 -1 ? ? ? C . n C 1 3 ALA 3 0 ? ? ? C . n C 1 4 MET 4 1 ? ? ? C . n C 1 5 PHE 5 2 ? ? ? C . n C 1 6 ALA 6 3 ? ? ? C . n C 1 7 PRO 7 4 ? ? ? C . n C 1 8 GLN 8 5 5 GLN GLN C . n C 1 9 GLY 9 6 6 GLY GLY C . n C 1 10 LEU 10 7 7 LEU LEU C . n C 1 11 ALA 11 8 8 ALA ALA C . n C 1 12 GLN 12 9 9 GLN GLN C . n C 1 13 PHE 13 10 10 PHE PHE C . n C 1 14 ILE 14 11 11 ILE ILE C . n C 1 15 LYS 15 12 12 LYS LYS C . n C 1 16 VAL 16 13 13 VAL VAL C . n C 1 17 ASN 17 14 14 ASN ASN C . n C 1 18 VAL 18 15 15 VAL VAL C . n C 1 19 THR 19 16 16 THR THR C . n C 1 20 LEU 20 17 17 LEU LEU C . n C 1 21 GLU 21 18 18 GLU GLU C . n C 1 22 ASN 22 19 19 ASN ASN C . n C 1 23 GLY 23 20 20 GLY GLY C . n C 1 24 GLU 24 21 21 GLU GLU C . n C 1 25 PRO 25 22 22 PRO PRO C . n C 1 26 VAL 26 23 23 VAL VAL C . n C 1 27 PHE 27 24 24 PHE PHE C . n C 1 28 ILE 28 25 25 ILE ILE C . n C 1 29 PHE 29 26 26 PHE PHE C . n C 1 30 THR 30 27 27 THR THR C . n C 1 31 ASP 31 28 28 ASP ASP C . n C 1 32 ALA 32 29 29 ALA ALA C . n C 1 33 ASN 33 30 30 ASN ASN C . n C 1 34 GLY 34 31 31 GLY GLY C . n C 1 35 GLN 35 32 32 GLN GLN C . n C 1 36 VAL 36 33 33 VAL VAL C . n C 1 37 CYS 37 34 34 CYS CYS C . n C 1 38 GLN 38 35 35 GLN GLN C . n C 1 39 GLY 39 36 36 GLY GLY C . n C 1 40 ASP 40 37 37 ASP ASP C . n C 1 41 ILE 41 38 38 ILE ILE C . n C 1 42 THR 42 39 39 THR THR C . n C 1 43 VAL 43 40 40 VAL VAL C . n C 1 44 THR 44 41 41 THR THR C . n C 1 45 GLN 45 42 42 GLN GLN C . n C 1 46 ALA 46 43 43 ALA ALA C . n C 1 47 GLY 47 44 44 GLY GLY C . n C 1 48 THR 48 45 45 THR THR C . n C 1 49 ILE 49 46 46 ILE ILE C . n C 1 50 THR 50 47 47 THR THR C . n C 1 51 TYR 51 48 48 TYR TYR C . n C 1 52 LEU 52 49 49 LEU LEU C . n C 1 53 LEU 53 50 50 LEU LEU C . n C 1 54 ASN 54 51 51 ASN ASN C . n C 1 55 ASP 55 52 52 ASP ASP C . n C 1 56 GLN 56 53 53 GLN GLN C . n C 1 57 THR 57 54 54 THR THR C . n C 1 58 LEU 58 55 55 LEU LEU C . n C 1 59 LYS 59 56 56 LYS LYS C . n C 1 60 GLY 60 57 57 GLY GLY C . n C 1 61 LEU 61 58 58 LEU LEU C . n C 1 62 LYS 62 59 59 LYS LYS C . n C 1 63 PHE 63 60 60 PHE PHE C . n C 1 64 VAL 64 61 61 VAL VAL C . n C 1 65 GLY 65 62 62 GLY GLY C . n C 1 66 VAL 66 63 63 VAL VAL C . n C 1 67 GLY 67 64 64 GLY GLY C . n C 1 68 PHE 68 65 65 PHE PHE C . n C 1 69 VAL 69 66 66 VAL VAL C . n C 1 70 THR 70 67 67 THR THR C . n C 1 71 PRO 71 68 68 PRO PRO C . n C 1 72 PHE 72 69 69 PHE PHE C . n C 1 73 ASP 73 70 70 ASP ASP C . n C 1 74 GLY 74 71 71 GLY GLY C . n C 1 75 ILE 75 72 72 ILE ILE C . n C 1 76 ILE 76 73 73 ILE ILE C . n C 1 77 ASP 77 74 74 ASP ASP C . n C 1 78 ALA 78 75 75 ALA ALA C . n C 1 79 VAL 79 76 76 VAL VAL C . n C 1 80 THR 80 77 77 THR THR C . n C 1 81 ILE 81 78 78 ILE ILE C . n C 1 82 SER 82 79 79 SER SER C . n C 1 83 SER 83 80 80 SER SER C . n C 1 84 ASP 84 81 81 ASP ASP C . n C 1 85 GLY 85 82 82 GLY GLY C . n C 1 86 MET 86 83 83 MET MET C . n C 1 87 LEU 87 84 84 LEU LEU C . n C 1 88 VAL 88 85 85 VAL VAL C . n C 1 89 GLN 89 86 86 GLN GLN C . n C 1 90 LEU 90 87 87 LEU LEU C . n C 1 91 VAL 91 88 88 VAL VAL C . n C 1 92 ASP 92 89 89 ASP ASP C . n C 1 93 LEU 93 90 90 LEU LEU C . n C 1 94 ASP 94 91 91 ASP ASP C . n C 1 95 LYS 95 92 92 LYS LYS C . n C 1 96 THR 96 93 93 THR THR C . n C 1 97 PRO 97 94 94 PRO PRO C . n C 1 98 GLY 98 95 95 GLY GLY C . n C 1 99 THR 99 96 96 THR THR C . n C 1 100 THR 100 97 97 THR THR C . n C 1 101 LYS 101 98 98 LYS LYS C . n C 1 102 PHE 102 99 99 PHE PHE C . n C 1 103 GLN 103 100 100 GLN GLN C . n C 1 104 PHE 104 101 101 PHE PHE C . n C 1 105 VAL 105 102 102 VAL VAL C . n C 1 106 LEU 106 103 103 LEU LEU C . n C 1 107 SER 107 104 104 SER SER C . n C 1 108 ASN 108 105 105 ASN ASN C . n C 1 109 THR 109 106 106 THR THR C . n C 1 110 ALA 110 107 107 ALA ALA C . n C 1 111 ASN 111 108 108 ASN ASN C . n C 1 112 THR 112 109 109 THR THR C . n C 1 113 LEU 113 110 110 LEU LEU C . n C 1 114 LEU 114 111 111 LEU LEU C . n C 1 115 VAL 115 112 112 VAL VAL C . n C 1 116 LEU 116 113 113 LEU LEU C . n C 1 117 SER 117 114 114 SER SER C . n C 1 118 PRO 118 115 115 PRO PRO C . n C 1 119 ASP 119 116 116 ASP ASP C . n D 2 1 PRO 1 117 117 PRO PRO D . n D 2 2 GLN 2 118 118 GLN GLN D . n D 2 3 ILE 3 119 119 ILE ILE D . n D 2 4 ILE 4 120 120 ILE ILE D . n D 2 5 ASN 5 121 121 ASN ASN D . n D 2 6 ARG 6 122 122 ARG ARG D . n D 2 7 PRO 7 123 123 PRO PRO D . n D 2 8 GLN 8 124 ? ? ? D . n D 2 9 ASN 9 125 ? ? ? D . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG # 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 E 3 HOH 1 117 3 HOH HOH A . E 3 HOH 2 118 4 HOH HOH A . E 3 HOH 3 119 6 HOH HOH A . E 3 HOH 4 120 8 HOH HOH A . E 3 HOH 5 121 11 HOH HOH A . E 3 HOH 6 122 12 HOH HOH A . E 3 HOH 7 123 13 HOH HOH A . E 3 HOH 8 124 14 HOH HOH A . E 3 HOH 9 125 15 HOH HOH A . E 3 HOH 10 126 21 HOH HOH A . E 3 HOH 11 127 22 HOH HOH A . E 3 HOH 12 128 25 HOH HOH A . E 3 HOH 13 129 27 HOH HOH A . E 3 HOH 14 130 31 HOH HOH A . E 3 HOH 15 131 32 HOH HOH A . E 3 HOH 16 132 34 HOH HOH A . E 3 HOH 17 133 36 HOH HOH A . E 3 HOH 18 134 38 HOH HOH A . E 3 HOH 19 135 39 HOH HOH A . E 3 HOH 20 136 40 HOH HOH A . E 3 HOH 21 137 42 HOH HOH A . E 3 HOH 22 138 45 HOH HOH A . E 3 HOH 23 139 47 HOH HOH A . E 3 HOH 24 140 51 HOH HOH A . E 3 HOH 25 141 52 HOH HOH A . E 3 HOH 26 142 53 HOH HOH A . E 3 HOH 27 143 54 HOH HOH A . E 3 HOH 28 144 59 HOH HOH A . E 3 HOH 29 145 61 HOH HOH A . E 3 HOH 30 146 62 HOH HOH A . E 3 HOH 31 147 65 HOH HOH A . E 3 HOH 32 148 67 HOH HOH A . E 3 HOH 33 149 68 HOH HOH A . E 3 HOH 34 150 70 HOH HOH A . F 3 HOH 1 55 55 HOH HOH B . G 3 HOH 1 117 1 HOH HOH C . G 3 HOH 2 118 2 HOH HOH C . G 3 HOH 3 119 5 HOH HOH C . G 3 HOH 4 120 7 HOH HOH C . G 3 HOH 5 121 9 HOH HOH C . G 3 HOH 6 122 10 HOH HOH C . G 3 HOH 7 123 16 HOH HOH C . G 3 HOH 8 124 17 HOH HOH C . G 3 HOH 9 125 18 HOH HOH C . G 3 HOH 10 126 19 HOH HOH C . G 3 HOH 11 127 20 HOH HOH C . G 3 HOH 12 128 23 HOH HOH C . G 3 HOH 13 129 24 HOH HOH C . G 3 HOH 14 130 26 HOH HOH C . G 3 HOH 15 131 28 HOH HOH C . G 3 HOH 16 132 29 HOH HOH C . G 3 HOH 17 133 30 HOH HOH C . G 3 HOH 18 134 33 HOH HOH C . G 3 HOH 19 135 35 HOH HOH C . G 3 HOH 20 136 37 HOH HOH C . G 3 HOH 21 137 41 HOH HOH C . G 3 HOH 22 138 43 HOH HOH C . G 3 HOH 23 139 44 HOH HOH C . G 3 HOH 24 140 46 HOH HOH C . G 3 HOH 25 141 48 HOH HOH C . G 3 HOH 26 142 49 HOH HOH C . G 3 HOH 27 143 50 HOH HOH C . G 3 HOH 28 144 56 HOH HOH C . G 3 HOH 29 145 57 HOH HOH C . G 3 HOH 30 146 58 HOH HOH C . G 3 HOH 31 147 60 HOH HOH C . G 3 HOH 32 148 63 HOH HOH C . G 3 HOH 33 149 64 HOH HOH C . G 3 HOH 34 150 66 HOH HOH C . G 3 HOH 35 151 69 HOH HOH C . # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dodecameric 12 2 author_and_software_defined_assembly PISA tetrameric 4 3 software_defined_assembly PISA dimeric 2 4 software_defined_assembly PISA hexameric 6 5 software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2,3 A,B,C,D,E,F,G 2 1 A,B,C,D,E,F,G 3 1 A,B,E,F 4 1,2,3 A,C,E,G 5 1 C,D,G # 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)' 20790 ? 1 MORE -129 ? 1 'SSA (A^2)' 28200 ? 2 'ABSA (A^2)' 4190 ? 2 MORE -22 ? 2 'SSA (A^2)' 12140 ? 3 'ABSA (A^2)' 1370 ? 3 MORE -5 ? 3 'SSA (A^2)' 6800 ? 4 'ABSA (A^2)' 12610 ? 4 MORE -97 ? 4 'SSA (A^2)' 29370 ? 5 'ABSA (A^2)' 1360 ? 5 MORE -5 ? 5 'SSA (A^2)' 6800 ? # 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' 2_555 -y,x-y,z -0.5000000000 -0.8660254038 0.0000000000 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5000000000 0.8660254038 0.0000000000 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2010-07-07 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2012-10-10 4 'Structure model' 1 3 2012-10-31 5 'Structure model' 1 4 2017-11-08 6 'Structure model' 1 5 2023-09-06 # _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' 'Database references' 3 4 'Structure model' 'Derived calculations' 4 5 'Structure model' 'Refinement description' 5 6 'Structure model' 'Data collection' 6 6 'Structure model' 'Database references' 7 6 'Structure model' 'Derived calculations' 8 6 'Structure model' 'Refinement description' # 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 5 'Structure model' software 2 6 'Structure model' chem_comp_atom 3 6 'Structure model' chem_comp_bond 4 6 'Structure model' database_2 5 6 'Structure model' pdbx_initial_refinement_model 6 6 'Structure model' struct_conn 7 6 '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 6 'Structure model' '_database_2.pdbx_DOI' 2 6 'Structure model' '_database_2.pdbx_database_accession' 3 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 6 'Structure model' '_struct_ref_seq_dif.details' # 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 0.4672 21.4073 -0.5434 0.1321 0.0294 0.1228 -0.0036 -0.0104 0.0386 1.0774 0.2497 1.1056 -0.1857 -0.1440 0.2521 -0.0408 0.0005 0.0403 0.0454 0.1606 -0.0322 -0.0470 -0.1175 -0.0280 'X-RAY DIFFRACTION' 2 ? refined -1.3358 32.2748 8.5767 0.3679 0.0277 0.1951 0.0895 -0.0476 0.0333 -5.0990 12.0296 -3.6055 1.6134 5.6064 -1.3531 -0.1525 -0.1679 0.3204 0.8192 0.6544 -0.5152 0.9717 -0.5169 -0.3385 'X-RAY DIFFRACTION' 3 ? refined -18.7865 10.2807 7.8500 0.0441 0.1119 0.1146 0.0382 0.0308 -0.0227 0.3382 1.1268 1.2942 0.1185 0.1198 -0.0711 -0.0260 -0.0017 0.0277 -0.0661 0.0491 0.1526 0.0333 -0.0876 -0.1000 'X-RAY DIFFRACTION' 4 ? refined -27.2345 17.2426 -1.1577 0.1821 0.2040 0.1686 0.1534 -0.0458 0.0199 5.6548 -7.2899 -1.4324 -2.0598 -4.2524 3.9399 0.5333 -0.6685 0.1352 0.5696 -0.0381 0.4725 0.2407 -0.5403 -0.2761 # 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 3 A 116 ? . . . . ? 'X-RAY DIFFRACTION' 2 2 B 117 B 124 ? . . . . ? 'X-RAY DIFFRACTION' 3 3 C 3 C 116 ? . . . . ? 'X-RAY DIFFRACTION' 4 4 D 117 D 124 ? . . . . ? # _phasing.method MR # 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 DENZO . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 MOLREP . ? program 'Alexei Vaguine' alexei@ysbl.york.ac.uk phasing http://www.ccp4.ac.uk/dist/html/molrep.html Fortran_77 ? 4 REFMAC 5.5.0109 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 5 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 6 SBC-Collect . ? ? ? ? 'data collection' ? ? ? 7 HKL-2000 . ? ? ? ? 'data reduction' ? ? ? 8 HKL-3000 . ? ? ? ? 'data scaling' ? ? ? # _pdbx_entry_details.entry_id 3NJF _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details 'THE CHAIN-B PEPTIDE IS A PRODUCT OF AUTOCATALYTIC CLEAVAGE DURING CRYSTALLIZATION' _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 NZ _pdbx_validate_close_contact.auth_asym_id_1 C _pdbx_validate_close_contact.auth_comp_id_1 LYS _pdbx_validate_close_contact.auth_seq_id_1 98 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 CA _pdbx_validate_close_contact.auth_asym_id_2 C _pdbx_validate_close_contact.auth_comp_id_2 ASP _pdbx_validate_close_contact.auth_seq_id_2 116 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.19 # 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 THR A 67 ? ? -119.40 66.73 2 1 THR C 67 ? ? -117.25 70.65 # 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 SER -2 ? A SER 1 2 1 Y 1 A ASN -1 ? A ASN 2 3 1 Y 1 A ALA 0 ? A ALA 3 4 1 Y 1 A MET 1 ? A MET 4 5 1 Y 1 A PHE 2 ? A PHE 5 6 1 Y 1 A ALA 3 ? A ALA 6 7 1 Y 1 A PRO 4 ? A PRO 7 8 1 Y 1 B GLN 124 ? B GLN 8 9 1 Y 1 B ASN 125 ? B ASN 9 10 1 Y 1 C SER -2 ? C SER 1 11 1 Y 1 C ASN -1 ? C ASN 2 12 1 Y 1 C ALA 0 ? C ALA 3 13 1 Y 1 C MET 1 ? C MET 4 14 1 Y 1 C PHE 2 ? C PHE 5 15 1 Y 1 C ALA 3 ? C ALA 6 16 1 Y 1 C PRO 4 ? C PRO 7 17 1 Y 1 D GLN 124 ? D GLN 8 18 1 Y 1 D ASN 125 ? D ASN 9 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 HOH O O N N 137 HOH H1 H N N 138 HOH H2 H N N 139 ILE N N N N 140 ILE CA C N S 141 ILE C C N N 142 ILE O O N N 143 ILE CB C N S 144 ILE CG1 C N N 145 ILE CG2 C N N 146 ILE CD1 C N N 147 ILE OXT O N N 148 ILE H H N N 149 ILE H2 H N N 150 ILE HA H N N 151 ILE HB H N N 152 ILE HG12 H N N 153 ILE HG13 H N N 154 ILE HG21 H N N 155 ILE HG22 H N N 156 ILE HG23 H N N 157 ILE HD11 H N N 158 ILE HD12 H N N 159 ILE HD13 H N N 160 ILE HXT H N N 161 LEU N N N N 162 LEU CA C N S 163 LEU C C N N 164 LEU O O N N 165 LEU CB C N N 166 LEU CG C N N 167 LEU CD1 C N N 168 LEU CD2 C N N 169 LEU OXT O N N 170 LEU H H N N 171 LEU H2 H N N 172 LEU HA H N N 173 LEU HB2 H N N 174 LEU HB3 H N N 175 LEU HG H N N 176 LEU HD11 H N N 177 LEU HD12 H N N 178 LEU HD13 H N N 179 LEU HD21 H N N 180 LEU HD22 H N N 181 LEU HD23 H N N 182 LEU HXT H N N 183 LYS N N N N 184 LYS CA C N S 185 LYS C C N N 186 LYS O O N N 187 LYS CB C N N 188 LYS CG C N N 189 LYS CD C N N 190 LYS CE C N N 191 LYS NZ N N N 192 LYS OXT O N N 193 LYS H H N N 194 LYS H2 H N N 195 LYS HA H N N 196 LYS HB2 H N N 197 LYS HB3 H N N 198 LYS HG2 H N N 199 LYS HG3 H N N 200 LYS HD2 H N N 201 LYS HD3 H N N 202 LYS HE2 H N N 203 LYS HE3 H N N 204 LYS HZ1 H N N 205 LYS HZ2 H N N 206 LYS HZ3 H N N 207 LYS HXT H N N 208 MET N N N N 209 MET CA C N S 210 MET C C N N 211 MET O O N N 212 MET CB C N N 213 MET CG C N N 214 MET SD S N N 215 MET CE C N N 216 MET OXT O N N 217 MET H H N N 218 MET H2 H N N 219 MET HA H N N 220 MET HB2 H N N 221 MET HB3 H N N 222 MET HG2 H N N 223 MET HG3 H N N 224 MET HE1 H N N 225 MET HE2 H N N 226 MET HE3 H N N 227 MET HXT H N N 228 PHE N N N N 229 PHE CA C N S 230 PHE C C N N 231 PHE O O N N 232 PHE CB C N N 233 PHE CG C Y N 234 PHE CD1 C Y N 235 PHE CD2 C Y N 236 PHE CE1 C Y N 237 PHE CE2 C Y N 238 PHE CZ C Y N 239 PHE OXT O N N 240 PHE H H N N 241 PHE H2 H N N 242 PHE HA H N N 243 PHE HB2 H N N 244 PHE HB3 H N N 245 PHE HD1 H N N 246 PHE HD2 H N N 247 PHE HE1 H N N 248 PHE HE2 H N N 249 PHE HZ H N N 250 PHE HXT H N N 251 PRO N N N N 252 PRO CA C N S 253 PRO C C N N 254 PRO O O N N 255 PRO CB C N N 256 PRO CG C N N 257 PRO CD C N N 258 PRO OXT O N N 259 PRO H H N N 260 PRO HA H N N 261 PRO HB2 H N N 262 PRO HB3 H N N 263 PRO HG2 H N N 264 PRO HG3 H N N 265 PRO HD2 H N N 266 PRO HD3 H N N 267 PRO HXT H N N 268 SER N N N N 269 SER CA C N S 270 SER C C N N 271 SER O O N N 272 SER CB C N N 273 SER OG O N N 274 SER OXT O N N 275 SER H H N N 276 SER H2 H N N 277 SER HA H N N 278 SER HB2 H N N 279 SER HB3 H N N 280 SER HG H N N 281 SER HXT H N N 282 THR N N N N 283 THR CA C N S 284 THR C C N N 285 THR O O N N 286 THR CB C N R 287 THR OG1 O N N 288 THR CG2 C N N 289 THR OXT O N N 290 THR H H N N 291 THR H2 H N N 292 THR HA H N N 293 THR HB H N N 294 THR HG1 H N N 295 THR HG21 H N N 296 THR HG22 H N N 297 THR HG23 H N N 298 THR HXT H N N 299 TYR N N N N 300 TYR CA C N S 301 TYR C C N N 302 TYR O O N N 303 TYR CB C N N 304 TYR CG C Y N 305 TYR CD1 C Y N 306 TYR CD2 C Y N 307 TYR CE1 C Y N 308 TYR CE2 C Y N 309 TYR CZ C Y N 310 TYR OH O N N 311 TYR OXT O N N 312 TYR H H N N 313 TYR H2 H N N 314 TYR HA H N N 315 TYR HB2 H N N 316 TYR HB3 H N N 317 TYR HD1 H N N 318 TYR HD2 H N N 319 TYR HE1 H N N 320 TYR HE2 H N N 321 TYR HH H N N 322 TYR HXT H N N 323 VAL N N N N 324 VAL CA C N S 325 VAL C C N N 326 VAL O O N N 327 VAL CB C N N 328 VAL CG1 C N N 329 VAL CG2 C N N 330 VAL OXT O N N 331 VAL H H N N 332 VAL H2 H N N 333 VAL HA H N N 334 VAL HB H N N 335 VAL HG11 H N N 336 VAL HG12 H N N 337 VAL HG13 H N N 338 VAL HG21 H N N 339 VAL HG22 H N N 340 VAL HG23 H N N 341 VAL HXT H N N 342 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 HOH O H1 sing N N 129 HOH O H2 sing N N 130 ILE N CA sing N N 131 ILE N H sing N N 132 ILE N H2 sing N N 133 ILE CA C sing N N 134 ILE CA CB sing N N 135 ILE CA HA sing N N 136 ILE C O doub N N 137 ILE C OXT sing N N 138 ILE CB CG1 sing N N 139 ILE CB CG2 sing N N 140 ILE CB HB sing N N 141 ILE CG1 CD1 sing N N 142 ILE CG1 HG12 sing N N 143 ILE CG1 HG13 sing N N 144 ILE CG2 HG21 sing N N 145 ILE CG2 HG22 sing N N 146 ILE CG2 HG23 sing N N 147 ILE CD1 HD11 sing N N 148 ILE CD1 HD12 sing N N 149 ILE CD1 HD13 sing N N 150 ILE OXT HXT sing N N 151 LEU N CA sing N N 152 LEU N H sing N N 153 LEU N H2 sing N N 154 LEU CA C sing N N 155 LEU CA CB sing N N 156 LEU CA HA sing N N 157 LEU C O doub N N 158 LEU C OXT sing N N 159 LEU CB CG sing N N 160 LEU CB HB2 sing N N 161 LEU CB HB3 sing N N 162 LEU CG CD1 sing N N 163 LEU CG CD2 sing N N 164 LEU CG HG sing N N 165 LEU CD1 HD11 sing N N 166 LEU CD1 HD12 sing N N 167 LEU CD1 HD13 sing N N 168 LEU CD2 HD21 sing N N 169 LEU CD2 HD22 sing N N 170 LEU CD2 HD23 sing N N 171 LEU OXT HXT sing N N 172 LYS N CA sing N N 173 LYS N H sing N N 174 LYS N H2 sing N N 175 LYS CA C sing N N 176 LYS CA CB sing N N 177 LYS CA HA sing N N 178 LYS C O doub N N 179 LYS C OXT sing N N 180 LYS CB CG sing N N 181 LYS CB HB2 sing N N 182 LYS CB HB3 sing N N 183 LYS CG CD sing N N 184 LYS CG HG2 sing N N 185 LYS CG HG3 sing N N 186 LYS CD CE sing N N 187 LYS CD HD2 sing N N 188 LYS CD HD3 sing N N 189 LYS CE NZ sing N N 190 LYS CE HE2 sing N N 191 LYS CE HE3 sing N N 192 LYS NZ HZ1 sing N N 193 LYS NZ HZ2 sing N N 194 LYS NZ HZ3 sing N N 195 LYS OXT HXT sing N N 196 MET N CA sing N N 197 MET N H sing N N 198 MET N H2 sing N N 199 MET CA C sing N N 200 MET CA CB sing N N 201 MET CA HA sing N N 202 MET C O doub N N 203 MET C OXT sing N N 204 MET CB CG sing N N 205 MET CB HB2 sing N N 206 MET CB HB3 sing N N 207 MET CG SD sing N N 208 MET CG HG2 sing N N 209 MET CG HG3 sing N N 210 MET SD CE sing N N 211 MET CE HE1 sing N N 212 MET CE HE2 sing N N 213 MET CE HE3 sing N N 214 MET OXT HXT sing N N 215 PHE N CA sing N N 216 PHE N H sing N N 217 PHE N H2 sing N N 218 PHE CA C sing N N 219 PHE CA CB sing N N 220 PHE CA HA sing N N 221 PHE C O doub N N 222 PHE C OXT sing N N 223 PHE CB CG sing N N 224 PHE CB HB2 sing N N 225 PHE CB HB3 sing N N 226 PHE CG CD1 doub Y N 227 PHE CG CD2 sing Y N 228 PHE CD1 CE1 sing Y N 229 PHE CD1 HD1 sing N N 230 PHE CD2 CE2 doub Y N 231 PHE CD2 HD2 sing N N 232 PHE CE1 CZ doub Y N 233 PHE CE1 HE1 sing N N 234 PHE CE2 CZ sing Y N 235 PHE CE2 HE2 sing N N 236 PHE CZ HZ sing N N 237 PHE OXT HXT sing N N 238 PRO N CA sing N N 239 PRO N CD sing N N 240 PRO N H sing N N 241 PRO CA C sing N N 242 PRO CA CB sing N N 243 PRO CA HA sing N N 244 PRO C O doub N N 245 PRO C OXT sing N N 246 PRO CB CG sing N N 247 PRO CB HB2 sing N N 248 PRO CB HB3 sing N N 249 PRO CG CD sing N N 250 PRO CG HG2 sing N N 251 PRO CG HG3 sing N N 252 PRO CD HD2 sing N N 253 PRO CD HD3 sing N N 254 PRO OXT HXT sing N N 255 SER N CA sing N N 256 SER N H sing N N 257 SER N H2 sing N N 258 SER CA C sing N N 259 SER CA CB sing N N 260 SER CA HA sing N N 261 SER C O doub N N 262 SER C OXT sing N N 263 SER CB OG sing N N 264 SER CB HB2 sing N N 265 SER CB HB3 sing N N 266 SER OG HG sing N N 267 SER OXT HXT sing N N 268 THR N CA sing N N 269 THR N H sing N N 270 THR N H2 sing N N 271 THR CA C sing N N 272 THR CA CB sing N N 273 THR CA HA sing N N 274 THR C O doub N N 275 THR C OXT sing N N 276 THR CB OG1 sing N N 277 THR CB CG2 sing N N 278 THR CB HB sing N N 279 THR OG1 HG1 sing N N 280 THR CG2 HG21 sing N N 281 THR CG2 HG22 sing N N 282 THR CG2 HG23 sing N N 283 THR OXT HXT sing N N 284 TYR N CA sing N N 285 TYR N H sing N N 286 TYR N H2 sing N N 287 TYR CA C sing N N 288 TYR CA CB sing N N 289 TYR CA HA sing N N 290 TYR C O doub N N 291 TYR C OXT sing N N 292 TYR CB CG sing N N 293 TYR CB HB2 sing N N 294 TYR CB HB3 sing N N 295 TYR CG CD1 doub Y N 296 TYR CG CD2 sing Y N 297 TYR CD1 CE1 sing Y N 298 TYR CD1 HD1 sing N N 299 TYR CD2 CE2 doub Y N 300 TYR CD2 HD2 sing N N 301 TYR CE1 CZ doub Y N 302 TYR CE1 HE1 sing N N 303 TYR CE2 CZ sing Y N 304 TYR CE2 HE2 sing N N 305 TYR CZ OH sing N N 306 TYR OH HH sing N N 307 TYR OXT HXT sing N N 308 VAL N CA sing N N 309 VAL N H sing N N 310 VAL N H2 sing N N 311 VAL CA C sing N N 312 VAL CA CB sing N N 313 VAL CA HA sing N N 314 VAL C O doub N N 315 VAL C OXT sing N N 316 VAL CB CG1 sing N N 317 VAL CB CG2 sing N N 318 VAL CB HB sing N N 319 VAL CG1 HG11 sing N N 320 VAL CG1 HG12 sing N N 321 VAL CG1 HG13 sing N N 322 VAL CG2 HG21 sing N N 323 VAL CG2 HG22 sing N N 324 VAL CG2 HG23 sing N N 325 VAL OXT HXT sing N N 326 # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3N55 _pdbx_initial_refinement_model.details ? #