data_1VWQ # _entry.id 1VWQ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 1VWQ WWPDB D_1000177142 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1VWQ _pdbx_database_status.recvd_initial_deposition_date 1997-03-03 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site ? _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Katz, B.A.' 1 'Cass, R.T.' 2 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;In crystals of complexes of streptavidin with peptide ligands containing the HPQ sequence the pKa of the peptide histidine is less than 3.0. ; J.Biol.Chem. 272 13220 13228 1997 JBCHA3 US 0021-9258 0071 ? 9148939 10.1074/jbc.272.20.13220 1 ;Structure-Based Design Tools: Structural and Thermodynamic Comparison with Biotin of a Small Molecule that Binds Streptavidin with Micromolar Affinity ; J.Am.Chem.Soc. 118 7914 ? 1996 JACSAT US 0002-7863 0004 ? ? ? 2 'Preparation of a Protein-Dimerizing Ligand by Topochemistry and Structure-Based Design' J.Am.Chem.Soc. 118 2535 ? 1996 JACSAT US 0002-7863 0004 ? ? ? 3 'Topochemical Catalysis Achieved by Structure-Based Ligand Design' J.Biol.Chem. 270 31210 ? 1995 JBCHA3 US 0021-9258 0071 ? ? ? 4 'Topochemistry for Preparing Ligands that Dimerize Receptors' Chem.Biol. 2 591 ? 1995 CBOLE2 UK 1074-5521 2050 ? ? ? 5 ;Binding to Protein Targets of Peptidic Leads Discovered by Phage Display: Crystal Structures of Streptavidin-Bound Linear and Cyclic Peptide Ligands Containing the Hpq Sequence ; Biochemistry 34 15421 ? 1995 BICHAW US 0006-2960 0033 ? ? ? 6 'Structure-Based Design of High Affinity Streptavidin Binding Cyclic Peptide Ligands Containing Thioether Cross-Links' J.Am.Chem.Soc. 117 8541 ? 1995 JACSAT US 0002-7863 0004 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Katz, B.A.' 1 primary 'Cass, R.T.' 2 1 'Katz, B.A.' 3 1 'Liu, B.' 4 1 'Cass, R.T.' 5 2 'Katz, B.A.' 6 3 'Katz, B.A.' 7 3 'Cass, R.T.' 8 3 'Liu, B.' 9 3 'Arze, R.' 10 3 'Collins, N.' 11 4 'Katz, B.A.' 12 4 'Stroud, R.M.' 13 4 'Collins, N.' 14 4 'Liu, B.' 15 4 'Arze, R.' 16 5 'Katz, B.A.' 17 6 'Katz, B.A.' 18 6 'Johnson, C.R.' 19 6 'Cass, R.T.' 20 # _cell.entry_id 1VWQ _cell.length_a 58.100 _cell.length_b 58.100 _cell.length_c 174.490 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VWQ _symmetry.space_group_name_H-M 'I 41 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 # 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 nat STREPTAVIDIN 12965.025 1 ? ? ? ? 2 polymer nat 'PEPTIDE LIGAND CONTAINING HPQ' 863.017 1 ? ? ? ? 3 non-polymer syn 'PENTANOIC ACID' 102.132 1 ? ? ? ? 4 water nat water 18.015 64 ? ? ? ? # 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 ;AEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGNAESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTW SGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKP ; ;AEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGNAESRYVLTGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTW SGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKP ; B ? 2 'polypeptide(L)' no yes 'HPQGPPCK(NH2)' HPQGPPCKX P ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ALA n 1 2 GLU n 1 3 ALA n 1 4 GLY n 1 5 ILE n 1 6 THR n 1 7 GLY n 1 8 THR n 1 9 TRP n 1 10 TYR n 1 11 ASN n 1 12 GLN n 1 13 LEU n 1 14 GLY n 1 15 SER n 1 16 THR n 1 17 PHE n 1 18 ILE n 1 19 VAL n 1 20 THR n 1 21 ALA n 1 22 GLY n 1 23 ALA n 1 24 ASP n 1 25 GLY n 1 26 ALA n 1 27 LEU n 1 28 THR n 1 29 GLY n 1 30 THR n 1 31 TYR n 1 32 GLU n 1 33 SER n 1 34 ALA n 1 35 VAL n 1 36 GLY n 1 37 ASN n 1 38 ALA n 1 39 GLU n 1 40 SER n 1 41 ARG n 1 42 TYR n 1 43 VAL n 1 44 LEU n 1 45 THR n 1 46 GLY n 1 47 ARG n 1 48 TYR n 1 49 ASP n 1 50 SER n 1 51 ALA n 1 52 PRO n 1 53 ALA n 1 54 THR n 1 55 ASP n 1 56 GLY n 1 57 SER n 1 58 GLY n 1 59 THR n 1 60 ALA n 1 61 LEU n 1 62 GLY n 1 63 TRP n 1 64 THR n 1 65 VAL n 1 66 ALA n 1 67 TRP n 1 68 LYS n 1 69 ASN n 1 70 ASN n 1 71 TYR n 1 72 ARG n 1 73 ASN n 1 74 ALA n 1 75 HIS n 1 76 SER n 1 77 ALA n 1 78 THR n 1 79 THR n 1 80 TRP n 1 81 SER n 1 82 GLY n 1 83 GLN n 1 84 TYR n 1 85 VAL n 1 86 GLY n 1 87 GLY n 1 88 ALA n 1 89 GLU n 1 90 ALA n 1 91 ARG n 1 92 ILE n 1 93 ASN n 1 94 THR n 1 95 GLN n 1 96 TRP n 1 97 LEU n 1 98 LEU n 1 99 THR n 1 100 SER n 1 101 GLY n 1 102 THR n 1 103 THR n 1 104 GLU n 1 105 ALA n 1 106 ASN n 1 107 ALA n 1 108 TRP n 1 109 LYS n 1 110 SER n 1 111 THR n 1 112 LEU n 1 113 VAL n 1 114 GLY n 1 115 HIS n 1 116 ASP n 1 117 THR n 1 118 PHE n 1 119 THR n 1 120 LYS n 1 121 VAL n 1 122 LYS n 1 123 PRO n 2 1 HIS n 2 2 PRO n 2 3 GLN n 2 4 GLY n 2 5 PRO n 2 6 PRO n 2 7 CYS n 2 8 LYS n 2 9 NH2 n # loop_ _entity_src_nat.entity_id _entity_src_nat.pdbx_src_id _entity_src_nat.pdbx_alt_source_flag _entity_src_nat.pdbx_beg_seq_num _entity_src_nat.pdbx_end_seq_num _entity_src_nat.common_name _entity_src_nat.pdbx_organism_scientific _entity_src_nat.pdbx_ncbi_taxonomy_id _entity_src_nat.genus _entity_src_nat.species _entity_src_nat.strain _entity_src_nat.tissue _entity_src_nat.tissue_fraction _entity_src_nat.pdbx_secretion _entity_src_nat.pdbx_fragment _entity_src_nat.pdbx_variant _entity_src_nat.pdbx_cell_line _entity_src_nat.pdbx_atcc _entity_src_nat.pdbx_cellular_location _entity_src_nat.pdbx_organ _entity_src_nat.pdbx_organelle _entity_src_nat.pdbx_cell _entity_src_nat.pdbx_plasmid_name _entity_src_nat.pdbx_plasmid_details _entity_src_nat.details 1 1 sample ? ? ? 'Streptomyces avidinii' 1895 Streptomyces ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? 'island jararaca' 'Bothrops insularis' 8723 Bothrops ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.entity_id _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 UNP SAV_STRAV 1 P22629 1 ;MRKIVVAAIAVSLTTVSITASASADPSKDSKAQVSAAEAGITGTWYNQLGSTFIVTAGADGALTGTYESAVGNAESRYVL TGRYDSAPATDGSGTALGWTVAWKNNYRNAHSATTWSGQYVGGAEARINTQWLLTSGTTEANAWKSTLVGHDTFTKVKPS AASIDAAKKAGVNNGNPLDAVQQ ; ? 2 PDB 1VWQ 2 1VWQ ? ? ? # 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 1VWQ B 1 ? 123 ? P22629 37 ? 159 ? 13 135 2 2 1VWQ P 1 ? 9 ? 1VWQ 3 ? 10 ? 3 10 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEA non-polymer . 'PENTANOIC ACID' 'VALERIC ACID' 'C5 H10 O2' 102.132 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 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 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 1VWQ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.66 _exptl_crystal.density_percent_sol 33.3 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 2.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details 'SYNTHETIC MOTHER LIQUOR = 75 % SATURATED AMMONIUM SULFATE, 25 % 1.0 M SODIUM FORMATE ADJUSTED TO PH 2.5.' # _diffrn.id 1 _diffrn.ambient_temp 293 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1VWQ _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high ? _reflns.number_obs 28160 _reflns.number_all ? _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs 0.1070000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.5 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1VWQ _refine.ls_number_reflns_obs 11983 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.5 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 7.5 _refine.ls_d_res_high 1.70 _refine.ls_percent_reflns_obs 71.6 _refine.ls_R_factor_obs 0.1950000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1950000 _refine.ls_R_factor_R_free 0.2230000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10. _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ;THE FOLLOWING ATOMS HAD WEAK DENSITY AND OCCUPANCIES WERE REFINED: 13, 14, 15, (MAIN CHAIN OF GLN 24), (SIDE CHAIN OF GLN 24), (N, HN, CA, HA1, HA2 OF GLY 26), (MAIN CHAIN OF ALA 35), (SIDE CHAIN OF ALA 35), (MAIN CHAIN AND CB, HB1, HB2 OF ASP 36), (CG, OD1, AND OD2 OF ASP 36), 46, 47, 48, 49, 50, (MAIN CHAIN AND CB, HB1, HB2 OF GLU 51), (CG, HG1, HG2, CD, OE1, OE2 OF GLU 51), (SIDE CHAIN OF SER 52), (TERMINUS OF ARG 53), 99, 100, (N AND HN OF GLU 101), (CG, HG1, HG2, CD, OE1, OE2 OF GLU 101), TERMINUS OF ARG 103, (N, HN, CA, HA OF GLU 116), (CB, HB1, HB2, CG, HG1, HG2 OF GLU 116), (CD, OE1, OE2 OF GLU 116), (N, HN, CA, HA OF ALA 117), (CB, HB1, HB2, HB3 OF ALA 117), LYS 121 FROM CG OUTWARD, LYS 132 SIDE CHAIN, (LYS P 9 AND NH2 P 10). DISCRETELY DISORDERED ENTIRE RESIDUES WHOSE OCCUPANCIES AND STRUCTURES WERE SIMULTANEOUSLY REFINED ARE: 60, 61, 62, 63, 64, 65, 66, 67, 68, 69. DISCRETELY DISORDERED SIDE CHAINS WHOSE OCCUPANCIES AND STRUCTURES WERE SIMULTANEOUSLY REFINED ARE: ARG 84, GLN 107. RESIDUES 60 - 69 WERE REFINED IN 2 CONFORMATIONS BECAUSE UPON PROTONATION OF ASP 61 AT LOW PH, ASP 61 UNDERGOES A LARGE SHIFT IN CONFORMATION AND CHANGE IN HYDROGEN BONDING. THE LOOP COMPRISING RESIDUES 61 - 69 ALSO UNDERGO CORRESPONDING CONFORMATIONAL CHANGES. HOWEVER SOME OF THESE RESIDUES ARE DISORDERED AND NOT VISIBLE IN EITHER CONFORMATION. DISORDERED WATERS ARE HOH 166 WHICH IS CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF HOH 354; HOH 148 WHICH OCCUPIES THE SPACE AVAILABLE WHEN ASP 61 IS IN CONFORMATION 2; HOH 279, HOH 305, HOH 313, HOH 516, HOH 526, HOH 532 WHICH ARE CLOSE TO SYMMETRY-RELATED EQUIVALENTS OF THEMSELVES; NO ENERGY INTERACTIONS INVOLVING HOH 279, HOH 305, HOH 313, HOH 516, HOH 526, HOH 532 WERE TURNED ON DURING REFINEMENT. THE FOLLOWING ATOMS HAD WEAK DENSITY AND OCCUPANCIES WERE REFINED: 13, 14, 15, (MAIN CHAIN OF GLN 24), (SIDE CHAIN OF GLN 24), (N, HN, CA, HA1, HA2 OF GLY 26), (MAIN CHAIN OF ALA 35), (SIDE CHAIN OF ALA 35), (MAIN CHAIN AND CB, HB1, HB2 OF ASP 36), (CG, OD1, AND OD2 OF ASP 36), 46, 47, 48, 49, 50, (MAIN CHAIN AND CB, HB1, HB2 OF GLU 51), (CG, HG1, HG2, CD, OE1, OE2 OF GLU 51), (SIDE CHAIN OF SER 52), (TERMINUS OF ARG 53), 99, 100, (N AND HN OF GLU 101), (CG, HG1, HG2, CD, OE1, OE2 OF GLU 101), TERMINUS OF ARG 103, (N, HN, CA, HA OF GLU 116), (CB, HB1, HB2, CG, HG1, HG2 OF GLU 116), (CD, OE1, OE2 OF GLU 116), (N, HN, CA, HA OF ALA 117), (CB, HB1, HB2, HB3 OF ALA 117), LYS 121 FROM CG OUTWARD, LYS 132 SIDE CHAIN, (LYS P 9 AND NH2 P 10). RESIDUES 60 - 69 WERE REFINED IN 2 CONFORMATIONS BECAUSE UPON PROTONATION OF ASP 61 AT LOW PH, ASP 61 UNDERGOES A LARGE SHIFT IN CONFORMATION AND CHANGE IN HYDROGEN BONDING. THE LOOP COMPRISING RESIDUES 61 - 69 ALSO UNDERGO CORRESPONDING CONFORMATIONAL CHANGES. HOWEVER SOME OF THESE RESIDUES ARE DISORDERED AND NOT VISIBLE IN EITHER CONFORMATION. ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _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 2017 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 14 _refine_hist.number_atoms_solvent 192 _refine_hist.number_atoms_total 2223 _refine_hist.d_res_high 1.70 _refine_hist.d_res_low 7.5 # 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 x_bond_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 4.3 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d 25.3 ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 1.70 _refine_ls_shell.d_res_low 1.78 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work ? _refine_ls_shell.percent_reflns_obs 60.5 _refine_ls_shell.R_factor_R_free ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 I4VAL25_PARMALLH3X.PRO I4VAL25_TOPALLH6X_BAK.PRO 'X-RAY DIFFRACTION' 2 PARAM11_UCSF.WAT TOPH19.PEP 'X-RAY DIFFRACTION' 3 PARAM19XB2_KBCO.PRO TOPH19XB2_KBCO.PRO 'X-RAY DIFFRACTION' # _struct.entry_id 1VWQ _struct.title 'STREPTAVIDIN-CYCLO-[5-S-VALERAMIDE-HPQGPPC]K-NH2, PH 2.5, I4122 COMPLEX' _struct.pdbx_descriptor 'STREPTAVIDIN, PEPTIDE LIGAND CONTAINING HPQ, LEVULINIC ACID' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1VWQ _struct_keywords.pdbx_keywords 'COMPLEX (BIOTIN-BINDING PROTEIN/PEPTIDE)' _struct_keywords.text ;COMPLEX (BIOTIN-BINDING PROTEIN-PEPTIDE), CYCLIC PEPTIDE DISCOVERED BY PHAGE DISPLAY, COMPLEX (BIOTIN-BINDING PROTEIN-PEPTIDE) complex ; # 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 3 ? D N N 4 ? E N N 4 ? # _struct_biol.id 1 # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id GLU _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 104 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id LYS _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 109 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id GLU _struct_conf.beg_auth_asym_id B _struct_conf.beg_auth_seq_id 116 _struct_conf.end_auth_comp_id LYS _struct_conf.end_auth_asym_id B _struct_conf.end_auth_seq_id 121 _struct_conf.pdbx_PDB_helix_class 5 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 6 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? C LEA . C2 ? ? ? 1_555 B HIS 1 N ? ? P LEA 2 P HIS 3 1_555 ? ? ? ? ? ? ? 1.305 ? covale2 covale ? ? C LEA . C6 ? ? ? 1_555 B CYS 7 SG ? ? P LEA 2 P CYS 1 1_555 ? ? ? ? ? ? ? 1.816 ? covale3 covale ? ? B NH2 9 N ? ? ? 1_555 B LYS 8 C ? ? P NH2 10 P LYS 9 1_555 ? ? ? ? ? ? ? 1.292 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 8 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel A 6 7 ? anti-parallel A 7 8 ? 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 GLY A 7 ? TYR A 10 ? GLY B 19 TYR B 22 A 2 THR A 16 ? ALA A 21 ? THR B 28 ALA B 33 A 3 ALA A 26 ? GLU A 32 ? ALA B 38 GLU B 44 A 4 ARG A 41 ? TYR A 48 ? ARG B 53 TYR B 60 A 5 THR A 59 ? ALA A 66 ? THR B 71 ALA B 78 A 6 SER A 76 ? VAL A 85 ? SER B 88 VAL B 97 A 7 ARG A 91 ? SER A 100 ? ARG B 103 SER B 112 A 8 THR A 111 ? THR A 119 ? THR B 123 THR B 131 # 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 GLY A 7 ? O GLY B 19 N VAL A 19 ? N VAL B 31 A 2 3 O THR A 16 ? O THR B 28 N GLU A 32 ? N GLU B 44 A 3 4 O LEU A 27 ? O LEU B 39 N GLY A 46 ? N GLY B 58 A 4 5 O THR A 45 ? O THR B 57 N THR A 64 ? N THR B 76 A 5 6 O THR A 59 ? O THR B 71 N TYR A 84 ? N TYR B 96 A 6 7 O ALA A 77 ? O ALA B 89 N THR A 99 ? N THR B 111 A 7 8 O ILE A 92 ? O ILE B 104 N PHE A 118 ? N PHE B 130 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _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 5 _struct_site.details 'BINDING SITE FOR RESIDUE LEA P 2' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 5 ARG A 72 ? ARG B 84 . ? 1_555 ? 2 AC1 5 CYS B 7 ? CYS P 1 . ? 1_555 ? 3 AC1 5 CYS B 7 ? CYS P 1 . ? 5_554 ? 4 AC1 5 HIS B 1 ? HIS P 3 . ? 1_555 ? 5 AC1 5 PRO B 2 ? PRO P 4 . ? 1_555 ? # _database_PDB_matrix.entry_id 1VWQ _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 1VWQ _atom_sites.fract_transf_matrix[1][1] 0.017212 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.017212 _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] 0.005731 _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 H 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 ALA 1 13 13 ALA ALA B . n A 1 2 GLU 2 14 14 GLU GLU B . n A 1 3 ALA 3 15 15 ALA ALA B . n A 1 4 GLY 4 16 16 GLY GLY B . n A 1 5 ILE 5 17 17 ILE ILE B . n A 1 6 THR 6 18 18 THR THR B . n A 1 7 GLY 7 19 19 GLY GLY B . n A 1 8 THR 8 20 20 THR THR B . n A 1 9 TRP 9 21 21 TRP TRP B . n A 1 10 TYR 10 22 22 TYR TYR B . n A 1 11 ASN 11 23 23 ASN ASN B . n A 1 12 GLN 12 24 24 GLN GLN B . n A 1 13 LEU 13 25 25 LEU LEU B . n A 1 14 GLY 14 26 26 GLY GLY B . n A 1 15 SER 15 27 27 SER SER B . n A 1 16 THR 16 28 28 THR THR B . n A 1 17 PHE 17 29 29 PHE PHE B . n A 1 18 ILE 18 30 30 ILE ILE B . n A 1 19 VAL 19 31 31 VAL VAL B . n A 1 20 THR 20 32 32 THR THR B . n A 1 21 ALA 21 33 33 ALA ALA B . n A 1 22 GLY 22 34 34 GLY GLY B . n A 1 23 ALA 23 35 35 ALA ALA B . n A 1 24 ASP 24 36 36 ASP ASP B . n A 1 25 GLY 25 37 37 GLY GLY B . n A 1 26 ALA 26 38 38 ALA ALA B . n A 1 27 LEU 27 39 39 LEU LEU B . n A 1 28 THR 28 40 40 THR THR B . n A 1 29 GLY 29 41 41 GLY GLY B . n A 1 30 THR 30 42 42 THR THR B . n A 1 31 TYR 31 43 43 TYR TYR B . n A 1 32 GLU 32 44 44 GLU GLU B . n A 1 33 SER 33 45 45 SER SER B . n A 1 34 ALA 34 46 46 ALA ALA B . n A 1 35 VAL 35 47 47 VAL VAL B . n A 1 36 GLY 36 48 48 GLY GLY B . n A 1 37 ASN 37 49 49 ASN ASN B . n A 1 38 ALA 38 50 50 ALA ALA B . n A 1 39 GLU 39 51 51 GLU GLU B . n A 1 40 SER 40 52 52 SER SER B . n A 1 41 ARG 41 53 53 ARG ARG B . n A 1 42 TYR 42 54 54 TYR TYR B . n A 1 43 VAL 43 55 55 VAL VAL B . n A 1 44 LEU 44 56 56 LEU LEU B . n A 1 45 THR 45 57 57 THR THR B . n A 1 46 GLY 46 58 58 GLY GLY B . n A 1 47 ARG 47 59 59 ARG ARG B . n A 1 48 TYR 48 60 60 TYR TYR B . n A 1 49 ASP 49 61 61 ASP ASP B . n A 1 50 SER 50 62 62 SER SER B . n A 1 51 ALA 51 63 63 ALA ALA B . n A 1 52 PRO 52 64 64 PRO PRO B . n A 1 53 ALA 53 65 65 ALA ALA B . n A 1 54 THR 54 66 66 THR THR B . n A 1 55 ASP 55 67 67 ASP ASP B . n A 1 56 GLY 56 68 68 GLY GLY B . n A 1 57 SER 57 69 69 SER SER B . n A 1 58 GLY 58 70 70 GLY GLY B . n A 1 59 THR 59 71 71 THR THR B . n A 1 60 ALA 60 72 72 ALA ALA B . n A 1 61 LEU 61 73 73 LEU LEU B . n A 1 62 GLY 62 74 74 GLY GLY B . n A 1 63 TRP 63 75 75 TRP TRP B . n A 1 64 THR 64 76 76 THR THR B . n A 1 65 VAL 65 77 77 VAL VAL B . n A 1 66 ALA 66 78 78 ALA ALA B . n A 1 67 TRP 67 79 79 TRP TRP B . n A 1 68 LYS 68 80 80 LYS LYS B . n A 1 69 ASN 69 81 81 ASN ASN B . n A 1 70 ASN 70 82 82 ASN ASN B . n A 1 71 TYR 71 83 83 TYR TYR B . n A 1 72 ARG 72 84 84 ARG ARG B . n A 1 73 ASN 73 85 85 ASN ASN B . n A 1 74 ALA 74 86 86 ALA ALA B . n A 1 75 HIS 75 87 87 HIS HIS B . n A 1 76 SER 76 88 88 SER SER B . n A 1 77 ALA 77 89 89 ALA ALA B . n A 1 78 THR 78 90 90 THR THR B . n A 1 79 THR 79 91 91 THR THR B . n A 1 80 TRP 80 92 92 TRP TRP B . n A 1 81 SER 81 93 93 SER SER B . n A 1 82 GLY 82 94 94 GLY GLY B . n A 1 83 GLN 83 95 95 GLN GLN B . n A 1 84 TYR 84 96 96 TYR TYR B . n A 1 85 VAL 85 97 97 VAL VAL B . n A 1 86 GLY 86 98 98 GLY GLY B . n A 1 87 GLY 87 99 99 GLY GLY B . n A 1 88 ALA 88 100 100 ALA ALA B . n A 1 89 GLU 89 101 101 GLU GLU B . n A 1 90 ALA 90 102 102 ALA ALA B . n A 1 91 ARG 91 103 103 ARG ARG B . n A 1 92 ILE 92 104 104 ILE ILE B . n A 1 93 ASN 93 105 105 ASN ASN B . n A 1 94 THR 94 106 106 THR THR B . n A 1 95 GLN 95 107 107 GLN GLN B . n A 1 96 TRP 96 108 108 TRP TRP B . n A 1 97 LEU 97 109 109 LEU LEU B . n A 1 98 LEU 98 110 110 LEU LEU B . n A 1 99 THR 99 111 111 THR THR B . n A 1 100 SER 100 112 112 SER SER B . n A 1 101 GLY 101 113 113 GLY GLY B . n A 1 102 THR 102 114 114 THR THR B . n A 1 103 THR 103 115 115 THR THR B . n A 1 104 GLU 104 116 116 GLU GLU B . n A 1 105 ALA 105 117 117 ALA ALA B . n A 1 106 ASN 106 118 118 ASN ASN B . n A 1 107 ALA 107 119 119 ALA ALA B . n A 1 108 TRP 108 120 120 TRP TRP B . n A 1 109 LYS 109 121 121 LYS LYS B . n A 1 110 SER 110 122 122 SER SER B . n A 1 111 THR 111 123 123 THR THR B . n A 1 112 LEU 112 124 124 LEU LEU B . n A 1 113 VAL 113 125 125 VAL VAL B . n A 1 114 GLY 114 126 126 GLY GLY B . n A 1 115 HIS 115 127 127 HIS HIS B . n A 1 116 ASP 116 128 128 ASP ASP B . n A 1 117 THR 117 129 129 THR THR B . n A 1 118 PHE 118 130 130 PHE PHE B . n A 1 119 THR 119 131 131 THR THR B . n A 1 120 LYS 120 132 132 LYS LYS B . n A 1 121 VAL 121 133 133 VAL VAL B . n A 1 122 LYS 122 134 ? ? ? B . n A 1 123 PRO 123 135 ? ? ? B . n B 2 1 HIS 1 3 3 HIS HIS P . n B 2 2 PRO 2 4 4 PRO PRO P . n B 2 3 GLN 3 5 5 GLN GLN P . n B 2 4 GLY 4 6 6 GLY GLY P . n B 2 5 PRO 5 7 7 PRO PRO P . n B 2 6 PRO 6 8 8 PRO PRO P . n B 2 7 CYS 7 1 1 CYS CYS P . n B 2 8 LYS 8 9 9 LYS LYS P . n B 2 9 NH2 9 10 10 NH2 NH2 P . 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 C 3 LEA 1 2 2 LEA PNO P . D 4 HOH 1 148 148 HOH HOH B . D 4 HOH 2 149 149 HOH HOH B . D 4 HOH 3 150 150 HOH HOH B . D 4 HOH 4 153 153 HOH HOH B . D 4 HOH 5 154 154 HOH HOH B . D 4 HOH 6 157 157 HOH HOH B . D 4 HOH 7 158 158 HOH HOH B . D 4 HOH 8 160 160 HOH HOH B . D 4 HOH 9 161 161 HOH HOH B . D 4 HOH 10 163 163 HOH HOH B . D 4 HOH 11 164 164 HOH HOH B . D 4 HOH 12 166 166 HOH HOH B . D 4 HOH 13 167 167 HOH HOH B . D 4 HOH 14 168 168 HOH HOH B . D 4 HOH 15 169 169 HOH HOH B . D 4 HOH 16 172 172 HOH HOH B . D 4 HOH 17 173 173 HOH HOH B . D 4 HOH 18 188 188 HOH HOH B . D 4 HOH 19 192 192 HOH HOH B . D 4 HOH 20 193 193 HOH HOH B . D 4 HOH 21 205 205 HOH HOH B . D 4 HOH 22 212 212 HOH HOH B . D 4 HOH 23 224 224 HOH HOH B . D 4 HOH 24 228 228 HOH HOH B . D 4 HOH 25 231 231 HOH HOH B . D 4 HOH 26 233 233 HOH HOH B . D 4 HOH 27 234 234 HOH HOH B . D 4 HOH 28 237 237 HOH HOH B . D 4 HOH 29 244 244 HOH HOH B . D 4 HOH 30 246 246 HOH HOH B . D 4 HOH 31 251 251 HOH HOH B . D 4 HOH 32 253 253 HOH HOH B . D 4 HOH 33 263 263 HOH HOH B . D 4 HOH 34 274 274 HOH HOH B . D 4 HOH 35 278 278 HOH HOH B . D 4 HOH 36 279 279 HOH HOH B . D 4 HOH 37 293 293 HOH HOH B . D 4 HOH 38 305 305 HOH HOH B . D 4 HOH 39 313 313 HOH HOH B . D 4 HOH 40 338 338 HOH HOH B . D 4 HOH 41 341 341 HOH HOH B . D 4 HOH 42 354 354 HOH HOH B . D 4 HOH 43 358 358 HOH HOH B . D 4 HOH 44 359 359 HOH HOH B . D 4 HOH 45 371 371 HOH HOH B . D 4 HOH 46 380 380 HOH HOH B . D 4 HOH 47 384 384 HOH HOH B . D 4 HOH 48 400 400 HOH HOH B . D 4 HOH 49 484 484 HOH HOH B . D 4 HOH 50 508 508 HOH HOH B . D 4 HOH 51 515 515 HOH HOH B . D 4 HOH 52 516 516 HOH HOH B . D 4 HOH 53 518 518 HOH HOH B . D 4 HOH 54 520 520 HOH HOH B . D 4 HOH 55 526 526 HOH HOH B . D 4 HOH 56 527 527 HOH HOH B . D 4 HOH 57 532 532 HOH HOH B . D 4 HOH 58 536 536 HOH HOH B . D 4 HOH 59 537 537 HOH HOH B . D 4 HOH 60 544 544 HOH HOH B . D 4 HOH 61 545 545 HOH HOH B . D 4 HOH 62 550 550 HOH HOH B . D 4 HOH 63 551 551 HOH HOH B . E 4 HOH 1 534 534 HOH HOH P . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # 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' 15_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 3 'crystal symmetry operation' 10_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 4 'crystal symmetry operation' 8_555 -y,-x,-z 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 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 B HOH 518 ? D HOH . 2 1 B HOH 518 ? D 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 1998-03-18 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-11-16 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Atomic model' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 X-PLOR refinement . ? 2 BIOTEX 'data reduction' '(MSC)' ? 3 X-PLOR phasing . ? 4 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 HZ2 B LYS 132 ? ? H2 B HOH 313 ? ? 1.18 2 1 H2 B HOH 167 ? ? H1 B HOH 168 ? ? 1.22 3 1 O B ALA 15 ? ? H1 B HOH 508 ? ? 1.52 4 1 H1 B HOH 153 ? ? O B HOH 154 ? ? 1.52 5 1 O B GLY 68 ? A H1 B HOH 341 ? ? 1.57 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 HD2 B LYS 132 ? ? 1_555 H2 B HOH 526 ? ? 10_655 0.21 2 1 O B HOH 532 ? ? 1_555 O B HOH 532 ? ? 6_555 0.32 3 1 O B HOH 516 ? ? 1_555 O B HOH 516 ? ? 6_545 0.39 4 1 O B HOH 313 ? ? 1_555 O B HOH 313 ? ? 10_655 0.39 5 1 O B HOH 305 ? ? 1_555 O B HOH 305 ? ? 15_555 0.51 6 1 O B HOH 305 ? ? 1_555 H2 B HOH 305 ? ? 15_555 0.55 7 1 H1 B HOH 313 ? ? 1_555 H2 B HOH 313 ? ? 10_655 0.67 8 1 O B HOH 166 ? ? 1_555 H1 B HOH 354 ? ? 8_555 0.69 9 1 O B HOH 313 ? ? 1_555 H2 B HOH 313 ? ? 10_655 0.77 10 1 O B HOH 532 ? ? 1_555 H2 B HOH 532 ? ? 6_555 0.78 11 1 HZ2 B LYS 132 ? ? 1_555 H1 B HOH 313 ? ? 10_655 0.82 12 1 CD B LYS 132 ? ? 1_555 H2 B HOH 526 ? ? 10_655 0.88 13 1 H1 B HOH 161 ? ? 1_555 H2 B HOH 516 ? ? 8_555 0.98 14 1 H1 B HOH 305 ? ? 1_555 H2 B HOH 305 ? ? 15_555 0.99 15 1 O B HOH 161 ? ? 1_555 H2 B HOH 516 ? ? 8_555 0.99 16 1 HD2 B LYS 132 ? ? 1_555 O B HOH 526 ? ? 10_655 1.04 17 1 O B HOH 305 ? ? 1_555 H1 B HOH 305 ? ? 15_555 1.14 18 1 HG3 B LYS 132 ? ? 1_555 H1 B HOH 526 ? ? 10_655 1.14 19 1 O B HOH 532 ? ? 1_555 H1 B HOH 532 ? ? 6_555 1.16 20 1 HD3 B LYS 132 ? ? 1_555 O B HOH 526 ? ? 10_655 1.20 21 1 HD1 B HIS 127 ? ? 1_555 O B HOH 173 ? ? 8_555 1.21 22 1 CD B LYS 132 ? ? 1_555 O B HOH 526 ? ? 10_655 1.24 23 1 H2 B HOH 166 ? ? 1_555 H1 B HOH 354 ? ? 8_555 1.26 24 1 O B HOH 516 ? ? 1_555 H1 B HOH 516 ? ? 6_545 1.27 25 1 H1 B HOH 532 ? ? 1_555 H2 B HOH 532 ? ? 6_555 1.28 26 1 H2 B HOH 313 ? ? 1_555 H2 B HOH 313 ? ? 10_655 1.34 27 1 O B HOH 516 ? ? 1_555 H2 B HOH 516 ? ? 6_545 1.35 28 1 O B HOH 313 ? ? 1_555 H1 B HOH 313 ? ? 10_655 1.39 29 1 CG B LYS 132 ? ? 1_555 H1 B HOH 526 ? ? 10_655 1.44 30 1 CD B LYS 132 ? ? 1_555 H1 B HOH 526 ? ? 10_655 1.48 31 1 NH2 B ARG 84 ? A 1_555 H2 B HOH 532 ? ? 15_555 1.49 32 1 O B HOH 163 ? ? 1_555 H2 B HOH 518 ? ? 14_554 1.54 33 1 O B TYR 60 ? B 1_555 H1 B HOH 278 ? ? 8_555 1.56 34 1 O B TYR 60 ? A 1_555 H1 B HOH 278 ? ? 8_555 1.57 35 1 OG B SER 93 ? ? 1_555 H1 B HOH 527 ? ? 8_555 1.58 36 1 O B HOH 166 ? ? 1_555 O B HOH 354 ? ? 8_555 1.62 37 1 O B HOH 279 ? ? 1_555 O B HOH 279 ? ? 10_655 1.81 38 1 O B HOH 161 ? ? 1_555 O B HOH 516 ? ? 8_555 1.99 39 1 CG B LYS 132 ? ? 1_555 O B HOH 526 ? ? 10_655 2.14 40 1 ND1 B HIS 127 ? ? 1_555 O B HOH 173 ? ? 8_555 2.15 41 1 NH2 B ARG 84 ? A 1_555 O B HOH 532 ? ? 11_554 2.19 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 CG B HIS 127 ? ? CD2 B HIS 127 ? ? 1.416 1.354 0.062 0.009 N 2 1 NE2 P HIS 3 ? ? CD2 P HIS 3 ? ? 1.287 1.373 -0.086 0.011 N 3 1 CA P CYS 1 ? ? CB P CYS 1 ? ? 1.425 1.526 -0.101 0.013 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CG B TRP 21 ? ? CD1 B TRP 21 ? ? NE1 B TRP 21 ? ? 103.69 110.10 -6.41 1.00 N 2 1 CD1 B TRP 21 ? ? NE1 B TRP 21 ? ? CE2 B TRP 21 ? ? 116.97 109.00 7.97 0.90 N 3 1 NE1 B TRP 21 ? ? CE2 B TRP 21 ? ? CZ2 B TRP 21 ? ? 139.14 130.40 8.74 1.10 N 4 1 N B SER 52 ? ? CA B SER 52 ? ? C B SER 52 ? ? 90.64 111.00 -20.36 2.70 N 5 1 CG B TRP 75 ? ? CD1 B TRP 75 ? ? NE1 B TRP 75 ? ? 103.38 110.10 -6.72 1.00 N 6 1 CD1 B TRP 75 ? ? NE1 B TRP 75 ? ? CE2 B TRP 75 ? ? 117.91 109.00 8.91 0.90 N 7 1 NE1 B TRP 75 ? ? CE2 B TRP 75 ? ? CZ2 B TRP 75 ? ? 138.17 130.40 7.77 1.10 N 8 1 NE1 B TRP 75 ? ? CE2 B TRP 75 ? ? CD2 B TRP 75 ? ? 101.21 107.30 -6.09 1.00 N 9 1 CG B TRP 79 ? ? CD1 B TRP 79 ? ? NE1 B TRP 79 ? ? 103.58 110.10 -6.52 1.00 N 10 1 CD1 B TRP 79 ? ? NE1 B TRP 79 ? ? CE2 B TRP 79 ? ? 116.74 109.00 7.74 0.90 N 11 1 NE B ARG 84 ? B CZ B ARG 84 ? B NH2 B ARG 84 ? B 116.96 120.30 -3.34 0.50 N 12 1 CG B TRP 92 ? ? CD1 B TRP 92 ? ? NE1 B TRP 92 ? ? 103.15 110.10 -6.95 1.00 N 13 1 CD1 B TRP 92 ? ? NE1 B TRP 92 ? ? CE2 B TRP 92 ? ? 117.02 109.00 8.02 0.90 N 14 1 NE1 B TRP 92 ? ? CE2 B TRP 92 ? ? CZ2 B TRP 92 ? ? 137.06 130.40 6.66 1.10 N 15 1 CG B TRP 108 ? ? CD1 B TRP 108 ? ? NE1 B TRP 108 ? ? 102.52 110.10 -7.58 1.00 N 16 1 CD1 B TRP 108 ? ? NE1 B TRP 108 ? ? CE2 B TRP 108 ? ? 117.41 109.00 8.41 0.90 N 17 1 NE1 B TRP 108 ? ? CE2 B TRP 108 ? ? CZ2 B TRP 108 ? ? 138.89 130.40 8.49 1.10 N 18 1 CG B TRP 120 ? ? CD1 B TRP 120 ? ? NE1 B TRP 120 ? ? 102.73 110.10 -7.37 1.00 N 19 1 CD1 B TRP 120 ? ? NE1 B TRP 120 ? ? CE2 B TRP 120 ? ? 117.29 109.00 8.29 0.90 N 20 1 CA P CYS 1 ? ? CB P CYS 1 ? ? SG P CYS 1 ? ? 124.53 114.20 10.33 1.10 N # 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 GLU B 14 ? ? 44.40 -80.24 2 1 ASP B 36 ? ? -100.99 44.13 3 1 VAL B 47 ? ? 99.81 -59.02 4 1 ALA B 50 ? ? -13.54 -56.58 5 1 PRO B 64 ? B -59.66 173.58 6 1 THR B 66 ? B -94.12 50.13 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 ARG B 53 ? ? 0.093 'SIDE CHAIN' 2 1 ARG B 84 ? ? 0.078 'SIDE CHAIN' 3 1 ARG B 103 ? ? 0.152 'SIDE CHAIN' # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 0 B ALA 65 ? N B A ALA 53 N 2 1 Y 0 B ALA 65 ? CA B A ALA 53 CA 3 1 Y 0 B ALA 65 ? C B A ALA 53 C 4 1 Y 0 B ALA 65 ? O B A ALA 53 O 5 1 Y 0 B ALA 65 ? CB B A ALA 53 CB 6 1 Y 0 B GLU 101 ? CG ? A GLU 89 CG 7 1 Y 0 B GLU 101 ? CD ? A GLU 89 CD 8 1 Y 0 B GLU 101 ? OE1 ? A GLU 89 OE1 9 1 Y 0 B GLU 101 ? OE2 ? A GLU 89 OE2 10 1 Y 0 B ARG 103 ? NE ? A ARG 91 NE 11 1 Y 0 B ARG 103 ? CZ ? A ARG 91 CZ 12 1 Y 0 B ARG 103 ? NH1 ? A ARG 91 NH1 13 1 Y 0 B ARG 103 ? NH2 ? A ARG 91 NH2 # 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 0 B ALA 46 ? A ALA 34 2 1 Y 0 B VAL 47 ? A VAL 35 3 1 Y 0 B GLY 48 ? A GLY 36 4 1 Y 0 B THR 66 ? A THR 54 5 1 Y 1 B LYS 134 ? A LYS 122 6 1 Y 1 B PRO 135 ? A PRO 123 7 1 Y 0 P LYS 9 ? B LYS 8 8 1 Y 0 P NH2 10 ? B NH2 9 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'PENTANOIC ACID' LEA 4 water HOH #