data_2VNL # _entry.id 2VNL # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.302 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2VNL PDBE EBI-34811 WWPDB D_1290034811 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 2VFO unspecified 'LOW TEMPERATURE STRUCTURE OF P22 TAILSPIKE PROTEIN FRAGMENT (109-666), MUTANT V125L' PDB 2VKY unspecified 'HEADBINDING DOMAIN OF PHAGE P22 TAILSPIKE C -TERMINALLY FUSED TO ISOLEUCINE ZIPPER PIIGCN4 (CHIMERA I)' PDB 2VFN unspecified 'LOW TEMPERATURE STRUCTURE OF P22 TAILSPIKE PROTEIN FRAGMENT (109-666), MUTANT V125A' PDB 2VFQ unspecified 'LOW TEMPERATURE STRUCTURE OF P22 TAILSPIKE PROTEIN FRAGMENT (109-666), MUTANT V450A' PDB 1QRC unspecified 'TAILSPIKE PROTEIN, MUTANT W391A' PDB 1CLW unspecified 'TAILSPIKE PROTEIN FROM PHAGE P22, V331A MUTANT' PDB 1QRB unspecified 'PLASTICITY AND STERIC STRAIN IN A PARALLEL BETA-HELIX:RATIONAL MUTATIONS IN P22 TAILSPIKE PROTEIN' PDB 1TSP unspecified . PDB 1QA2 unspecified 'TAILSPIKE PROTEIN, MUTANT A334V' PDB 2VFP unspecified 'LOW TEMPERATURE STRUCTURE OF P22 TAILSPIKE PROTEIN FRAGMENT (109-666), MUTANT V349L' PDB 2VFM unspecified 'LOW TEMPERATURE STRUCTURE OF P22 TAILSPIKE PROTEIN FRAGMENT (109-666)' PDB 1LKT unspecified 'CRYSTAL STRUCTURE OF THE HEAD-BINDING DOMAIN OF PHAGE P22TAILSPIKE PROTEIN' PDB 1QA3 unspecified 'TAILSPIKE PROTEIN, MUTANT A334I' PDB 1TYV unspecified 'STRUCTURE OF TAILSPIKE-PROTEIN' PDB 1QA1 unspecified 'TAILSPIKE PROTEIN, MUTANT V331G' PDB 1QQ1 unspecified 'TAILSPIKE PROTEIN, MUTANT E359G' PDB 2XC1 unspecified 'FULL-LENGTH TAILSPIKE PROTEIN MUTANT Y108W OF BACTERIOPHAGE P22' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2VNL _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2008-02-05 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Mueller, J.J.' 1 'Seul, A.' 2 'Mueller, G.' 3 'Seckler, R.' 4 'Heinemann, U.' 5 # _citation.id primary _citation.title 'Bacteriophage P22 Tailspike: Structure of the Complete Protein and Function of the Interdomain Linker' _citation.journal_abbrev 'Acta Crystallogr.,Sect.D' _citation.journal_volume 70 _citation.page_first 1336 _citation.page_last ? _citation.year 2014 _citation.journal_id_ASTM ABCRE6 _citation.country DK _citation.journal_id_ISSN 0907-4449 _citation.journal_id_CSD 0766 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 24816102 _citation.pdbx_database_id_DOI 10.1107/S1399004714002685 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Seul, A.' 1 ? primary 'Mueller, J.J.' 2 ? primary 'Andres, D.' 3 ? primary 'Stettner, E.' 4 ? primary 'Heinemann, U.' 5 ? primary 'Seckler, R.' 6 ? # _cell.entry_id 2VNL _cell.length_a 58.012 _cell.length_b 58.012 _cell.length_c 156.110 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VNL _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 # 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 'BIFUNCTIONAL TAIL PROTEIN, PIIGCN4' 16884.090 1 ? YES 'HEAD-BINDING DOMAIN, RESIDUES 2-122' 'AMINO ACIDS 2-122 OF PHAGE P22 TAILSPIKE HAVE BEEN LINKED TO THE ISOLEUCINE ZIPPER PIIGCN4 (LACKING THE N-TERMINAL MET) 123-152' 2 non-polymer syn GLYCEROL 92.094 3 ? ? ? ? 3 water nat water 18.015 131 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'LATE PROTEIN GP9, TAILSPIKE PROTEIN' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;TDITANVVVSNPRPIFTESRSFKAVANGKIYIGQIDTDPVNPANQIPVYIENEDGSHVQITQPLIINAAGKIVYNGQLVK IVTVQGHSMAIYDANGSQVDYIANVLKWDPDQYSIEADKKFKQIEDKIEEILSKIYHIENEIARIKKLIGE ; _entity_poly.pdbx_seq_one_letter_code_can ;TDITANVVVSNPRPIFTESRSFKAVANGKIYIGQIDTDPVNPANQIPVYIENEDGSHVQITQPLIINAAGKIVYNGQLVK IVTVQGHSMAIYDANGSQVDYIANVLKWDPDQYSIEADKKFKQIEDKIEEILSKIYHIENEIARIKKLIGE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 THR n 1 2 ASP n 1 3 ILE n 1 4 THR n 1 5 ALA n 1 6 ASN n 1 7 VAL n 1 8 VAL n 1 9 VAL n 1 10 SER n 1 11 ASN n 1 12 PRO n 1 13 ARG n 1 14 PRO n 1 15 ILE n 1 16 PHE n 1 17 THR n 1 18 GLU n 1 19 SER n 1 20 ARG n 1 21 SER n 1 22 PHE n 1 23 LYS n 1 24 ALA n 1 25 VAL n 1 26 ALA n 1 27 ASN n 1 28 GLY n 1 29 LYS n 1 30 ILE n 1 31 TYR n 1 32 ILE n 1 33 GLY n 1 34 GLN n 1 35 ILE n 1 36 ASP n 1 37 THR n 1 38 ASP n 1 39 PRO n 1 40 VAL n 1 41 ASN n 1 42 PRO n 1 43 ALA n 1 44 ASN n 1 45 GLN n 1 46 ILE n 1 47 PRO n 1 48 VAL n 1 49 TYR n 1 50 ILE n 1 51 GLU n 1 52 ASN n 1 53 GLU n 1 54 ASP n 1 55 GLY n 1 56 SER n 1 57 HIS n 1 58 VAL n 1 59 GLN n 1 60 ILE n 1 61 THR n 1 62 GLN n 1 63 PRO n 1 64 LEU n 1 65 ILE n 1 66 ILE n 1 67 ASN n 1 68 ALA n 1 69 ALA n 1 70 GLY n 1 71 LYS n 1 72 ILE n 1 73 VAL n 1 74 TYR n 1 75 ASN n 1 76 GLY n 1 77 GLN n 1 78 LEU n 1 79 VAL n 1 80 LYS n 1 81 ILE n 1 82 VAL n 1 83 THR n 1 84 VAL n 1 85 GLN n 1 86 GLY n 1 87 HIS n 1 88 SER n 1 89 MET n 1 90 ALA n 1 91 ILE n 1 92 TYR n 1 93 ASP n 1 94 ALA n 1 95 ASN n 1 96 GLY n 1 97 SER n 1 98 GLN n 1 99 VAL n 1 100 ASP n 1 101 TYR n 1 102 ILE n 1 103 ALA n 1 104 ASN n 1 105 VAL n 1 106 LEU n 1 107 LYS n 1 108 TRP n 1 109 ASP n 1 110 PRO n 1 111 ASP n 1 112 GLN n 1 113 TYR n 1 114 SER n 1 115 ILE n 1 116 GLU n 1 117 ALA n 1 118 ASP n 1 119 LYS n 1 120 LYS n 1 121 PHE n 1 122 LYS n 1 123 GLN n 1 124 ILE n 1 125 GLU n 1 126 ASP n 1 127 LYS n 1 128 ILE n 1 129 GLU n 1 130 GLU n 1 131 ILE n 1 132 LEU n 1 133 SER n 1 134 LYS n 1 135 ILE n 1 136 TYR n 1 137 HIS n 1 138 ILE n 1 139 GLU n 1 140 ASN n 1 141 GLU n 1 142 ILE n 1 143 ALA n 1 144 ARG n 1 145 ILE n 1 146 LYS n 1 147 LYS n 1 148 LEU n 1 149 ILE n 1 150 GLY n 1 151 GLU 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 ? 1 121 'SALMONELLA PHAGE P22' ? ? ? ? ? ? ? ? 'ENTEROBACTERIA PHAGE P22' 10754 ? ? ? ? ? ? ? ? 'ESCHERICHIA COLI' 469008 ? ? ? ? ? ? 'BL21(DE3)' ? ? ? ? ? ? ? ? ? ? ? PET17B ? ? 1 2 sample ? 122 150 ;BAKER'S YEAST ; ? ? ? ? ? ? ? ? 'SACCHAROMYCES CEREVISIAE' 4932 ? ? ? ? ? ? ? ? 'ESCHERICHIA COLI' 469008 ? ? ? ? ? ? 'BL21(DE3)' ? ? ? ? ? ? ? ? ? ? ? PET17B ? ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform 1 UNP TSPE_BPP22 1 ? ? P12528 ? 2 PDB 2VNL 1 ? ? 2VNL ? # 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 2VNL A 1 ? 121 ? P12528 2 ? 122 ? 2 122 2 2 2VNL A 122 ? 150 ? 2VNL 123 ? 151 ? 123 151 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 2VNL _struct_ref_seq_dif.mon_id TRP _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 108 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P12528 _struct_ref_seq_dif.db_mon_id TYR _struct_ref_seq_dif.pdbx_seq_db_seq_num 109 _struct_ref_seq_dif.details 'engineered mutation' _struct_ref_seq_dif.pdbx_auth_seq_num 109 _struct_ref_seq_dif.pdbx_ordinal 1 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 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 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 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.entry_id 2VNL _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.70 _exptl_crystal.density_percent_sol 54.10 _exptl_crystal.description NONE # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;VAPOR DIFFUSION, HANGING DROP. PROTEIN: CONC. 9.3 MG/ML,BUFFER 50MM HEPES, PH6.5; RESERVOIR:20% ISOPROPANOL, 0.1M NA-ACETATE, PH4.6, 0.2M CACL2; DROPLET 2 MICROL:2 MICROL.CRYO:30% GLYCEROL. ; # _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 MARRESEARCH _diffrn_detector.pdbx_collection_date 2006-10-27 _diffrn_detector.details MIRRORS # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator SI-111 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.95373 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'BESSY BEAMLINE 14.1' _diffrn_source.pdbx_synchrotron_site BESSY _diffrn_source.pdbx_synchrotron_beamline 14.1 _diffrn_source.pdbx_wavelength 0.95373 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 2VNL _reflns.observed_criterion_sigma_I . _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.00 _reflns.d_resolution_high 1.80 _reflns.number_obs 17904 _reflns.number_all ? _reflns.percent_possible_obs 98.5 _reflns.pdbx_Rmerge_I_obs 0.05 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 22.50 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 7.3 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.80 _reflns_shell.d_res_low 1.93 _reflns_shell.percent_possible_all 95.5 _reflns_shell.Rmerge_I_obs 0.38 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 5.00 _reflns_shell.pdbx_redundancy 7.3 # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 2VNL _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 17174 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 19.37 _refine.ls_d_res_high 1.80 _refine.ls_percent_reflns_obs 99.7 _refine.ls_R_factor_obs 0.192 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.190 _refine.ls_R_factor_R_free 0.229 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.200 _refine.ls_number_reflns_R_free 934 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.957 _refine.correlation_coeff_Fo_to_Fc_free 0.938 _refine.B_iso_mean 31.35 _refine.aniso_B[1][1] -0.02000 _refine.aniso_B[2][2] -0.02000 _refine.aniso_B[3][3] 0.03000 _refine.aniso_B[1][2] -0.01000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. THE HEAD-BINDING DOMAIN IS FUSED TO THE ISOLEUCINE ZIPPER PIIGCN4. THE BIOLOGICALLY ACTIVE HEAD- BINDING DOMAIN IS A CRYSTALLOGRAPHIC TRIMER. ; _refine.pdbx_starting_model 'PDB ENTRIES 1LKT, 1EBO' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.117 _refine.pdbx_overall_ESU_R_Free 0.117 _refine.overall_SU_ML 0.077 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 2.404 _refine.overall_SU_R_Cruickshank_DPI ? _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 1158 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 18 _refine_hist.number_atoms_solvent 131 _refine_hist.number_atoms_total 1307 _refine_hist.d_res_high 1.80 _refine_hist.d_res_low 19.37 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.013 0.022 ? 1225 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 821 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.287 1.955 ? 1659 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.854 3.000 ? 2035 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5.715 5.000 ? 146 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 31.041 26.167 ? 60 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 12.989 15.000 ? 221 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 7.497 15.000 ? 4 'X-RAY DIFFRACTION' ? r_chiral_restr 0.083 0.200 ? 190 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.005 0.020 ? 1324 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 211 'X-RAY DIFFRACTION' ? r_nbd_refined 0.202 0.200 ? 249 'X-RAY DIFFRACTION' ? r_nbd_other 0.174 0.200 ? 823 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.173 0.200 ? 610 'X-RAY DIFFRACTION' ? r_nbtor_other 0.085 0.200 ? 599 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.149 0.200 ? 69 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.197 0.200 ? 33 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.242 0.200 ? 70 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.192 0.200 ? 24 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1.722 2.000 ? 975 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.990 3.000 ? 1217 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 1.929 3.000 ? 561 'X-RAY DIFFRACTION' ? r_scbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it 2.597 4.500 ? 442 'X-RAY DIFFRACTION' ? r_scangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 15 _refine_ls_shell.d_res_high 1.80 _refine_ls_shell.d_res_low 1.86 _refine_ls_shell.number_reflns_R_work 1666 _refine_ls_shell.R_factor_R_work 0.2310 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.2560 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 94 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 2VNL _struct.title 'MUTANT Y108Wdel OF THE HEADBINDING DOMAIN OF PHAGE P22 TAILSPIKE C- TERMINally fused to ISOLEUCINE ZIPPER pIIGCN4 (chimera II)' _struct.pdbx_descriptor 'BIFUNCTIONAL TAIL PROTEIN, PIIGCN4' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2VNL _struct_keywords.pdbx_keywords 'VIRAL PROTEIN' _struct_keywords.text ;CHIMERA, HYDROLASE, LATE PROTEIN, VIRAL PROTEIN, PHAGE P22 TAILSPIKE PROTEIN, MUTANT Y108WDEL, HEAD-BINDING DOMAIN, ISOLEUCINE ZIPPER PIIGCN4 ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 2 ? E N N 3 ? # _struct_biol.id 1 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 ASN A 41 ? ASN A 44 ? ASN A 42 ASN A 45 5 ? 4 HELX_P HELX_P2 2 ASN A 104 ? ASP A 109 ? ASN A 105 ASP A 110 5 ? 6 HELX_P HELX_P3 3 TYR A 113 ? GLY A 150 ? TYR A 114 GLY A 151 1 ? 38 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLN _struct_mon_prot_cis.label_seq_id 62 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id GLN _struct_mon_prot_cis.auth_seq_id 63 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 63 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 64 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 0.42 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA ? 6 ? AB ? 3 ? # 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 AA 1 2 ? anti-parallel AA 2 3 ? anti-parallel AA 3 4 ? anti-parallel AA 4 5 ? anti-parallel AA 5 6 ? anti-parallel AB 1 2 ? anti-parallel AB 2 3 ? 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 AA 1 GLN A 77 ? LEU A 78 ? GLN A 78 LEU A 79 AA 2 ILE A 72 ? TYR A 74 ? ILE A 73 TYR A 75 AA 3 LEU A 64 ? ILE A 66 ? LEU A 65 ILE A 67 AA 4 LYS A 29 ? GLY A 33 ? LYS A 30 GLY A 34 AA 5 SER A 88 ? TYR A 92 ? SER A 89 TYR A 93 AA 6 GLN A 98 ? ILE A 102 ? GLN A 99 ILE A 103 AB 1 HIS A 57 ? ILE A 60 ? HIS A 58 ILE A 61 AB 2 VAL A 48 ? GLU A 51 ? VAL A 49 GLU A 52 AB 3 ILE A 81 ? VAL A 82 ? ILE A 82 VAL A 83 # 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 AA 1 2 N GLN A 77 ? N GLN A 78 O TYR A 74 ? O TYR A 75 AA 2 3 N VAL A 73 ? N VAL A 74 O ILE A 65 ? O ILE A 66 AA 3 4 N LEU A 64 ? N LEU A 65 O ILE A 30 ? O ILE A 31 AA 4 5 N GLY A 33 ? N GLY A 34 O SER A 88 ? O SER A 89 AA 5 6 O ILE A 91 ? O ILE A 92 N VAL A 99 ? N VAL A 100 AB 1 2 N ILE A 60 ? N ILE A 61 O VAL A 48 ? O VAL A 49 AB 2 3 N TYR A 49 ? N TYR A 50 O VAL A 82 ? O VAL A 83 # 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 ? ? ? ? 4 'BINDING SITE FOR RESIDUE GOL A 283' AC2 Software ? ? ? ? 7 'BINDING SITE FOR RESIDUE GOL A 284' AC3 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE GOL A 285' # 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 4 VAL A 73 ? VAL A 74 . ? 1_555 ? 2 AC1 4 TYR A 74 ? TYR A 75 . ? 1_555 ? 3 AC1 4 ASN A 75 ? ASN A 76 . ? 1_555 ? 4 AC1 4 GLY A 76 ? GLY A 77 . ? 1_555 ? 5 AC2 7 ASP A 38 ? ASP A 39 . ? 1_555 ? 6 AC2 7 VAL A 40 ? VAL A 41 . ? 1_555 ? 7 AC2 7 ALA A 90 ? ALA A 91 . ? 1_555 ? 8 AC2 7 TYR A 92 ? TYR A 93 . ? 1_555 ? 9 AC2 7 GLN A 98 ? GLN A 99 . ? 1_555 ? 10 AC2 7 TYR A 101 ? TYR A 102 . ? 1_555 ? 11 AC2 7 LYS A 134 ? LYS A 135 . ? 8_654 ? 12 AC3 4 TYR A 31 ? TYR A 32 . ? 1_555 ? 13 AC3 4 VAL A 40 ? VAL A 41 . ? 1_555 ? 14 AC3 4 HOH E . ? HOH A 2117 . ? 8_654 ? 15 AC3 4 HOH E . ? HOH A 2131 . ? 1_555 ? # _database_PDB_matrix.entry_id 2VNL _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 2VNL _atom_sites.fract_transf_matrix[1][1] 0.017238 _atom_sites.fract_transf_matrix[1][2] 0.009952 _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] 0.019904 _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] 0.006406 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # 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 THR 1 2 ? ? ? A . n A 1 2 ASP 2 3 ? ? ? A . n A 1 3 ILE 3 4 ? ? ? A . n A 1 4 THR 4 5 5 THR THR A . n A 1 5 ALA 5 6 6 ALA ALA A . n A 1 6 ASN 6 7 7 ASN ASN A . n A 1 7 VAL 7 8 8 VAL VAL A . n A 1 8 VAL 8 9 9 VAL VAL A . n A 1 9 VAL 9 10 10 VAL VAL A . n A 1 10 SER 10 11 11 SER SER A . n A 1 11 ASN 11 12 12 ASN ASN A . n A 1 12 PRO 12 13 13 PRO PRO A . n A 1 13 ARG 13 14 14 ARG ARG A . n A 1 14 PRO 14 15 15 PRO PRO A . n A 1 15 ILE 15 16 16 ILE ILE A . n A 1 16 PHE 16 17 17 PHE PHE A . n A 1 17 THR 17 18 18 THR THR A . n A 1 18 GLU 18 19 19 GLU GLU A . n A 1 19 SER 19 20 20 SER SER A . n A 1 20 ARG 20 21 21 ARG ARG A . n A 1 21 SER 21 22 22 SER SER A . n A 1 22 PHE 22 23 23 PHE PHE A . n A 1 23 LYS 23 24 24 LYS LYS A . n A 1 24 ALA 24 25 25 ALA ALA A . n A 1 25 VAL 25 26 26 VAL VAL A . n A 1 26 ALA 26 27 27 ALA ALA A . n A 1 27 ASN 27 28 28 ASN ASN A . n A 1 28 GLY 28 29 29 GLY GLY A . n A 1 29 LYS 29 30 30 LYS LYS A . n A 1 30 ILE 30 31 31 ILE ILE A . n A 1 31 TYR 31 32 32 TYR TYR A . n A 1 32 ILE 32 33 33 ILE ILE A . n A 1 33 GLY 33 34 34 GLY GLY A . n A 1 34 GLN 34 35 35 GLN GLN A . n A 1 35 ILE 35 36 36 ILE ILE A . n A 1 36 ASP 36 37 37 ASP ASP A . n A 1 37 THR 37 38 38 THR THR A . n A 1 38 ASP 38 39 39 ASP ASP A . n A 1 39 PRO 39 40 40 PRO PRO A . n A 1 40 VAL 40 41 41 VAL VAL A . n A 1 41 ASN 41 42 42 ASN ASN A . n A 1 42 PRO 42 43 43 PRO PRO A . n A 1 43 ALA 43 44 44 ALA ALA A . n A 1 44 ASN 44 45 45 ASN ASN A . n A 1 45 GLN 45 46 46 GLN GLN A . n A 1 46 ILE 46 47 47 ILE ILE A . n A 1 47 PRO 47 48 48 PRO PRO A . n A 1 48 VAL 48 49 49 VAL VAL A . n A 1 49 TYR 49 50 50 TYR TYR A . n A 1 50 ILE 50 51 51 ILE ILE A . n A 1 51 GLU 51 52 52 GLU GLU A . n A 1 52 ASN 52 53 53 ASN ASN A . n A 1 53 GLU 53 54 54 GLU GLU A . n A 1 54 ASP 54 55 55 ASP ASP A . n A 1 55 GLY 55 56 56 GLY GLY A . n A 1 56 SER 56 57 57 SER SER A . n A 1 57 HIS 57 58 58 HIS HIS A . n A 1 58 VAL 58 59 59 VAL VAL A . n A 1 59 GLN 59 60 60 GLN GLN A . n A 1 60 ILE 60 61 61 ILE ILE A . n A 1 61 THR 61 62 62 THR THR A . n A 1 62 GLN 62 63 63 GLN GLN A . n A 1 63 PRO 63 64 64 PRO PRO A . n A 1 64 LEU 64 65 65 LEU LEU A . n A 1 65 ILE 65 66 66 ILE ILE A . n A 1 66 ILE 66 67 67 ILE ILE A . n A 1 67 ASN 67 68 68 ASN ASN A . n A 1 68 ALA 68 69 69 ALA ALA A . n A 1 69 ALA 69 70 70 ALA ALA A . n A 1 70 GLY 70 71 71 GLY GLY A . n A 1 71 LYS 71 72 72 LYS LYS A . n A 1 72 ILE 72 73 73 ILE ILE A . n A 1 73 VAL 73 74 74 VAL VAL A . n A 1 74 TYR 74 75 75 TYR TYR A . n A 1 75 ASN 75 76 76 ASN ASN A . n A 1 76 GLY 76 77 77 GLY GLY A . n A 1 77 GLN 77 78 78 GLN GLN A . n A 1 78 LEU 78 79 79 LEU LEU A . n A 1 79 VAL 79 80 80 VAL VAL A . n A 1 80 LYS 80 81 81 LYS LYS A . n A 1 81 ILE 81 82 82 ILE ILE A . n A 1 82 VAL 82 83 83 VAL VAL A . n A 1 83 THR 83 84 84 THR THR A . n A 1 84 VAL 84 85 85 VAL VAL A . n A 1 85 GLN 85 86 86 GLN GLN A . n A 1 86 GLY 86 87 87 GLY GLY A . n A 1 87 HIS 87 88 88 HIS HIS A . n A 1 88 SER 88 89 89 SER SER A . n A 1 89 MET 89 90 90 MET MET A . n A 1 90 ALA 90 91 91 ALA ALA A . n A 1 91 ILE 91 92 92 ILE ILE A . n A 1 92 TYR 92 93 93 TYR TYR A . n A 1 93 ASP 93 94 94 ASP ASP A . n A 1 94 ALA 94 95 95 ALA ALA A . n A 1 95 ASN 95 96 96 ASN ASN A . n A 1 96 GLY 96 97 97 GLY GLY A . n A 1 97 SER 97 98 98 SER SER A . n A 1 98 GLN 98 99 99 GLN GLN A . n A 1 99 VAL 99 100 100 VAL VAL A . n A 1 100 ASP 100 101 101 ASP ASP A . n A 1 101 TYR 101 102 102 TYR TYR A . n A 1 102 ILE 102 103 103 ILE ILE A . n A 1 103 ALA 103 104 104 ALA ALA A . n A 1 104 ASN 104 105 105 ASN ASN A . n A 1 105 VAL 105 106 106 VAL VAL A . n A 1 106 LEU 106 107 107 LEU LEU A . n A 1 107 LYS 107 108 108 LYS LYS A . n A 1 108 TRP 108 109 109 TRP TRP A . n A 1 109 ASP 109 110 110 ASP ASP A . n A 1 110 PRO 110 111 111 PRO PRO A . n A 1 111 ASP 111 112 112 ASP ASP A . n A 1 112 GLN 112 113 113 GLN GLN A . n A 1 113 TYR 113 114 114 TYR TYR A . n A 1 114 SER 114 115 115 SER SER A . n A 1 115 ILE 115 116 116 ILE ILE A . n A 1 116 GLU 116 117 117 GLU GLU A . n A 1 117 ALA 117 118 118 ALA ALA A . n A 1 118 ASP 118 119 119 ASP ASP A . n A 1 119 LYS 119 120 120 LYS LYS A . n A 1 120 LYS 120 121 121 LYS LYS A . n A 1 121 PHE 121 122 122 PHE PHE A . n A 1 122 LYS 122 123 123 LYS LYS A . n A 1 123 GLN 123 124 124 GLN GLN A . n A 1 124 ILE 124 125 125 ILE ILE A . n A 1 125 GLU 125 126 126 GLU GLU A . n A 1 126 ASP 126 127 127 ASP ASP A . n A 1 127 LYS 127 128 128 LYS LYS A . n A 1 128 ILE 128 129 129 ILE ILE A . n A 1 129 GLU 129 130 130 GLU GLU A . n A 1 130 GLU 130 131 131 GLU GLU A . n A 1 131 ILE 131 132 132 ILE ILE A . n A 1 132 LEU 132 133 133 LEU LEU A . n A 1 133 SER 133 134 134 SER SER A . n A 1 134 LYS 134 135 135 LYS LYS A . n A 1 135 ILE 135 136 136 ILE ILE A . n A 1 136 TYR 136 137 137 TYR TYR A . n A 1 137 HIS 137 138 138 HIS HIS A . n A 1 138 ILE 138 139 139 ILE ILE A . n A 1 139 GLU 139 140 140 GLU GLU A . n A 1 140 ASN 140 141 141 ASN ASN A . n A 1 141 GLU 141 142 142 GLU GLU A . n A 1 142 ILE 142 143 143 ILE ILE A . n A 1 143 ALA 143 144 144 ALA ALA A . n A 1 144 ARG 144 145 145 ARG ARG A . n A 1 145 ILE 145 146 146 ILE ILE A . n A 1 146 LYS 146 147 147 LYS LYS A . n A 1 147 LYS 147 148 148 LYS LYS A . n A 1 148 LEU 148 149 149 LEU LEU A . n A 1 149 ILE 149 150 150 ILE ILE A . n A 1 150 GLY 150 151 151 GLY GLY A . n A 1 151 GLU 151 152 ? ? ? A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 GOL 1 283 283 GOL GOL A . C 2 GOL 1 284 284 GOL GOL A . D 2 GOL 1 285 285 GOL GOL A . E 3 HOH 1 2001 2001 HOH HOH A . E 3 HOH 2 2002 2002 HOH HOH A . E 3 HOH 3 2003 2003 HOH HOH A . E 3 HOH 4 2004 2004 HOH HOH A . E 3 HOH 5 2005 2005 HOH HOH A . E 3 HOH 6 2006 2006 HOH HOH A . E 3 HOH 7 2007 2007 HOH HOH A . E 3 HOH 8 2008 2008 HOH HOH A . E 3 HOH 9 2009 2009 HOH HOH A . E 3 HOH 10 2010 2010 HOH HOH A . E 3 HOH 11 2011 2011 HOH HOH A . E 3 HOH 12 2012 2012 HOH HOH A . E 3 HOH 13 2013 2013 HOH HOH A . E 3 HOH 14 2014 2014 HOH HOH A . E 3 HOH 15 2015 2015 HOH HOH A . E 3 HOH 16 2016 2016 HOH HOH A . E 3 HOH 17 2017 2017 HOH HOH A . E 3 HOH 18 2018 2018 HOH HOH A . E 3 HOH 19 2019 2019 HOH HOH A . E 3 HOH 20 2020 2020 HOH HOH A . E 3 HOH 21 2021 2021 HOH HOH A . E 3 HOH 22 2022 2022 HOH HOH A . E 3 HOH 23 2023 2023 HOH HOH A . E 3 HOH 24 2024 2024 HOH HOH A . E 3 HOH 25 2025 2025 HOH HOH A . E 3 HOH 26 2026 2026 HOH HOH A . E 3 HOH 27 2027 2027 HOH HOH A . E 3 HOH 28 2028 2028 HOH HOH A . E 3 HOH 29 2029 2029 HOH HOH A . E 3 HOH 30 2030 2030 HOH HOH A . E 3 HOH 31 2031 2031 HOH HOH A . E 3 HOH 32 2032 2032 HOH HOH A . E 3 HOH 33 2033 2033 HOH HOH A . E 3 HOH 34 2034 2034 HOH HOH A . E 3 HOH 35 2035 2035 HOH HOH A . E 3 HOH 36 2036 2036 HOH HOH A . E 3 HOH 37 2037 2037 HOH HOH A . E 3 HOH 38 2038 2038 HOH HOH A . E 3 HOH 39 2039 2039 HOH HOH A . E 3 HOH 40 2040 2040 HOH HOH A . E 3 HOH 41 2041 2041 HOH HOH A . E 3 HOH 42 2042 2042 HOH HOH A . E 3 HOH 43 2043 2043 HOH HOH A . E 3 HOH 44 2044 2044 HOH HOH A . E 3 HOH 45 2045 2045 HOH HOH A . E 3 HOH 46 2046 2046 HOH HOH A . E 3 HOH 47 2047 2047 HOH HOH A . E 3 HOH 48 2048 2048 HOH HOH A . E 3 HOH 49 2049 2049 HOH HOH A . E 3 HOH 50 2050 2050 HOH HOH A . E 3 HOH 51 2051 2051 HOH HOH A . E 3 HOH 52 2052 2052 HOH HOH A . E 3 HOH 53 2053 2053 HOH HOH A . E 3 HOH 54 2054 2054 HOH HOH A . E 3 HOH 55 2055 2055 HOH HOH A . E 3 HOH 56 2056 2056 HOH HOH A . E 3 HOH 57 2057 2057 HOH HOH A . E 3 HOH 58 2058 2058 HOH HOH A . E 3 HOH 59 2059 2059 HOH HOH A . E 3 HOH 60 2060 2060 HOH HOH A . E 3 HOH 61 2061 2061 HOH HOH A . E 3 HOH 62 2062 2062 HOH HOH A . E 3 HOH 63 2063 2063 HOH HOH A . E 3 HOH 64 2064 2064 HOH HOH A . E 3 HOH 65 2065 2065 HOH HOH A . E 3 HOH 66 2066 2066 HOH HOH A . E 3 HOH 67 2067 2067 HOH HOH A . E 3 HOH 68 2068 2068 HOH HOH A . E 3 HOH 69 2069 2069 HOH HOH A . E 3 HOH 70 2070 2070 HOH HOH A . E 3 HOH 71 2071 2071 HOH HOH A . E 3 HOH 72 2072 2072 HOH HOH A . E 3 HOH 73 2073 2073 HOH HOH A . E 3 HOH 74 2074 2074 HOH HOH A . E 3 HOH 75 2075 2075 HOH HOH A . E 3 HOH 76 2076 2076 HOH HOH A . E 3 HOH 77 2077 2077 HOH HOH A . E 3 HOH 78 2078 2078 HOH HOH A . E 3 HOH 79 2079 2079 HOH HOH A . E 3 HOH 80 2080 2080 HOH HOH A . E 3 HOH 81 2081 2081 HOH HOH A . E 3 HOH 82 2082 2082 HOH HOH A . E 3 HOH 83 2083 2083 HOH HOH A . E 3 HOH 84 2084 2084 HOH HOH A . E 3 HOH 85 2085 2085 HOH HOH A . E 3 HOH 86 2086 2086 HOH HOH A . E 3 HOH 87 2087 2087 HOH HOH A . E 3 HOH 88 2088 2088 HOH HOH A . E 3 HOH 89 2089 2089 HOH HOH A . E 3 HOH 90 2090 2090 HOH HOH A . E 3 HOH 91 2091 2091 HOH HOH A . E 3 HOH 92 2092 2092 HOH HOH A . E 3 HOH 93 2093 2093 HOH HOH A . E 3 HOH 94 2094 2094 HOH HOH A . E 3 HOH 95 2095 2095 HOH HOH A . E 3 HOH 96 2096 2096 HOH HOH A . E 3 HOH 97 2097 2097 HOH HOH A . E 3 HOH 98 2098 2098 HOH HOH A . E 3 HOH 99 2099 2099 HOH HOH A . E 3 HOH 100 2100 2100 HOH HOH A . E 3 HOH 101 2101 2101 HOH HOH A . E 3 HOH 102 2102 2102 HOH HOH A . E 3 HOH 103 2103 2103 HOH HOH A . E 3 HOH 104 2104 2104 HOH HOH A . E 3 HOH 105 2105 2105 HOH HOH A . E 3 HOH 106 2106 2106 HOH HOH A . E 3 HOH 107 2107 2107 HOH HOH A . E 3 HOH 108 2108 2108 HOH HOH A . E 3 HOH 109 2109 2109 HOH HOH A . E 3 HOH 110 2110 2110 HOH HOH A . E 3 HOH 111 2111 2111 HOH HOH A . E 3 HOH 112 2112 2112 HOH HOH A . E 3 HOH 113 2113 2113 HOH HOH A . E 3 HOH 114 2114 2114 HOH HOH A . E 3 HOH 115 2115 2115 HOH HOH A . E 3 HOH 116 2116 2116 HOH HOH A . E 3 HOH 117 2117 2117 HOH HOH A . E 3 HOH 118 2118 2118 HOH HOH A . E 3 HOH 119 2119 2119 HOH HOH A . E 3 HOH 120 2120 2120 HOH HOH A . E 3 HOH 121 2121 2121 HOH HOH A . E 3 HOH 122 2122 2122 HOH HOH A . E 3 HOH 123 2123 2123 HOH HOH A . E 3 HOH 124 2124 2124 HOH HOH A . E 3 HOH 125 2125 2125 HOH HOH A . E 3 HOH 126 2126 2126 HOH HOH A . E 3 HOH 127 2127 2127 HOH HOH A . E 3 HOH 128 2128 2128 HOH HOH A . E 3 HOH 129 2129 2129 HOH HOH A . E 3 HOH 130 2130 2130 HOH HOH A . E 3 HOH 131 2131 2131 HOH HOH A . # _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 15100 ? 1 MORE -98.4 ? 1 'SSA (A^2)' 21290 ? # 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_655 -y+1,x-y,z -0.5000000000 -0.8660254038 0.0000000000 58.0120000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5000000000 0.8660254038 0.0000000000 29.0060000000 -0.8660254038 -0.5000000000 0.0000000000 50.2398657243 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 2004 ? E HOH . 2 1 A HOH 2009 ? E HOH . 3 1 A HOH 2013 ? E HOH . # 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 2009-02-10 2 'Structure model' 1 1 2014-05-14 3 'Structure model' 1 2 2014-05-21 4 'Structure model' 1 3 2017-03-15 5 'Structure model' 1 4 2019-01-30 # _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 ? # 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' 'Database references' 2 2 'Structure model' 'Derived calculations' 3 2 'Structure model' 'Non-polymer description' 4 2 'Structure model' Other 5 2 'Structure model' 'Structure summary' 6 2 'Structure model' 'Version format compliance' 7 3 'Structure model' 'Database references' 8 4 'Structure model' 'Source and taxonomy' 9 5 'Structure model' 'Data collection' 10 5 'Structure model' 'Experimental preparation' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 5 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category exptl_crystal_grow # _pdbx_audit_revision_item.ordinal 1 _pdbx_audit_revision_item.revision_ordinal 5 _pdbx_audit_revision_item.data_content_type 'Structure model' _pdbx_audit_revision_item.item '_exptl_crystal_grow.method' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 XDS 'data reduction' . ? 2 XSCALE 'data scaling' . ? 3 PHASER phasing . ? 4 # _pdbx_entry_details.entry_id 2VNL _pdbx_entry_details.compound_details 'ENGINEERED RESIDUE IN CHAIN A, TYR 109 TO TRP' _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;MUTATION Y108W PIIGCN4 COMPRISES RESIDUES 1 TO 31 OF GI5542583, CHIMERA II (THIS ENTRY) (CORRESPONDING TO 123 TO 152) ; # 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 THR 2 ? A THR 1 2 1 Y 1 A ASP 3 ? A ASP 2 3 1 Y 1 A ILE 4 ? A ILE 3 4 1 Y 1 A GLU 152 ? A GLU 151 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 GLYCEROL GOL 3 water HOH #