data_3LO4 # _entry.id 3LO4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.398 _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 3LO4 pdb_00003lo4 10.2210/pdb3lo4/pdb RCSB RCSB057518 ? ? WWPDB D_1000057518 ? ? # 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 2010-03-09 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-08-17 4 'Structure model' 1 3 2021-10-13 5 'Structure model' 1 4 2023-09-06 6 'Structure model' 1 5 2024-11-06 # _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' Advisory 2 2 'Structure model' 'Refinement description' 3 2 'Structure model' 'Version format compliance' 4 3 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' 7 5 'Structure model' 'Data collection' 8 5 'Structure model' 'Refinement description' 9 6 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' struct_ref_seq_dif 3 4 'Structure model' struct_site 4 5 'Structure model' chem_comp_atom 5 5 'Structure model' chem_comp_bond 6 5 'Structure model' pdbx_initial_refinement_model 7 6 'Structure model' pdbx_entry_details 8 6 'Structure model' pdbx_modification_feature # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_ref_seq_dif.details' 4 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.entry_id 3LO4 _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 2010-02-03 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3GNY 'Crystal structure of human alpha-defensin 1 (HNP1)' unspecified PDB 3LO1 'Crystal structure of human alpha-defensin 1 (Y16A mutant)' unspecified PDB 3LO2 'Crystal structure of human alpha-defensin 1 (Y21A mutant)' unspecified PDB 3LO9 . unspecified PDB 3LOE . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Pazgier, M.' 1 'Lu, W.' 2 # _citation.id primary _citation.title 'Trp-26 imparts functional versatility to human alpha-defensin HNP1.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 285 _citation.page_first 16275 _citation.page_last 16285 _citation.year 2010 _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 20220136 _citation.pdbx_database_id_DOI 10.1074/jbc.M110.102749 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wei, G.' 1 ? primary 'Pazgier, M.' 2 ? primary 'de Leeuw, E.' 3 ? primary 'Rajabi, M.' 4 ? primary 'Li, J.' 5 ? primary 'Zou, G.' 6 ? primary 'Jung, G.' 7 ? primary 'Yuan, W.' 8 ? primary 'Lu, W.Y.' 9 ? primary 'Lehrer, R.I.' 10 ? primary 'Lu, W.' 11 ? # 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 syn 'Neutrophil defensin 1' 3365.995 2 ? R24A 'UNP residues 65-94' ? 2 non-polymer syn 'DI(HYDROXYETHYL)ETHER' 106.120 2 ? ? ? ? 3 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 4 water nat water 18.015 59 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'HNP-1, HP-1, HP1, Defensin, alpha 1, HP 1-56, Neutrophil defensin 2, HNP-2, HP-2, HP2' # _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 ACYCRIPACIAGERRYGTCIYQGALWAFCC _entity_poly.pdbx_seq_one_letter_code_can ACYCRIPACIAGERRYGTCIYQGALWAFCC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'DI(HYDROXYETHYL)ETHER' PEG 3 'CHLORIDE ION' CL 4 water HOH # 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 CYS n 1 3 TYR n 1 4 CYS n 1 5 ARG n 1 6 ILE n 1 7 PRO n 1 8 ALA n 1 9 CYS n 1 10 ILE n 1 11 ALA n 1 12 GLY n 1 13 GLU n 1 14 ARG n 1 15 ARG n 1 16 TYR n 1 17 GLY n 1 18 THR n 1 19 CYS n 1 20 ILE n 1 21 TYR n 1 22 GLN n 1 23 GLY n 1 24 ALA n 1 25 LEU n 1 26 TRP n 1 27 ALA n 1 28 PHE n 1 29 CYS n 1 30 CYS n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Protein naturally occurs in HUMAN' # 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 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 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 PEG non-polymer . 'DI(HYDROXYETHYL)ETHER' ? 'C4 H10 O3' 106.120 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 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 # 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 1 1 ALA ALA A . n A 1 2 CYS 2 2 2 CYS CYS A . n A 1 3 TYR 3 3 3 TYR TYR A . n A 1 4 CYS 4 4 4 CYS CYS A . n A 1 5 ARG 5 5 5 ARG ARG A . n A 1 6 ILE 6 6 6 ILE ILE A . n A 1 7 PRO 7 7 7 PRO PRO A . n A 1 8 ALA 8 8 8 ALA ALA A . n A 1 9 CYS 9 9 9 CYS CYS A . n A 1 10 ILE 10 10 10 ILE ILE A . n A 1 11 ALA 11 11 11 ALA ALA A . n A 1 12 GLY 12 12 12 GLY GLY A . n A 1 13 GLU 13 13 13 GLU GLU A . n A 1 14 ARG 14 14 14 ARG ARG A . n A 1 15 ARG 15 15 15 ARG ARG A . n A 1 16 TYR 16 16 16 TYR TYR A . n A 1 17 GLY 17 17 17 GLY GLY A . n A 1 18 THR 18 18 18 THR THR A . n A 1 19 CYS 19 19 19 CYS CYS A . n A 1 20 ILE 20 20 20 ILE ILE A . n A 1 21 TYR 21 21 21 TYR TYR A . n A 1 22 GLN 22 22 22 GLN GLN A . n A 1 23 GLY 23 23 23 GLY GLY A . n A 1 24 ALA 24 24 24 ALA ALA A . n A 1 25 LEU 25 25 25 LEU LEU A . n A 1 26 TRP 26 26 26 TRP TRP A . n A 1 27 ALA 27 27 27 ALA ALA A . n A 1 28 PHE 28 28 28 PHE PHE A . n A 1 29 CYS 29 29 29 CYS CYS A . n A 1 30 CYS 30 30 30 CYS CYS A . n B 1 1 ALA 1 1 1 ALA ALA B . n B 1 2 CYS 2 2 2 CYS CYS B . n B 1 3 TYR 3 3 3 TYR TYR B . n B 1 4 CYS 4 4 4 CYS CYS B . n B 1 5 ARG 5 5 5 ARG ARG B . n B 1 6 ILE 6 6 6 ILE ILE B . n B 1 7 PRO 7 7 7 PRO PRO B . n B 1 8 ALA 8 8 8 ALA ALA B . n B 1 9 CYS 9 9 9 CYS CYS B . n B 1 10 ILE 10 10 10 ILE ILE B . n B 1 11 ALA 11 11 11 ALA ALA B . n B 1 12 GLY 12 12 12 GLY GLY B . n B 1 13 GLU 13 13 13 GLU GLU B . n B 1 14 ARG 14 14 14 ARG ARG B . n B 1 15 ARG 15 15 15 ARG ARG B . n B 1 16 TYR 16 16 16 TYR TYR B . n B 1 17 GLY 17 17 17 GLY GLY B . n B 1 18 THR 18 18 18 THR THR B . n B 1 19 CYS 19 19 19 CYS CYS B . n B 1 20 ILE 20 20 20 ILE ILE B . n B 1 21 TYR 21 21 21 TYR TYR B . n B 1 22 GLN 22 22 22 GLN GLN B . n B 1 23 GLY 23 23 23 GLY GLY B . n B 1 24 ALA 24 24 24 ALA ALA B . n B 1 25 LEU 25 25 25 LEU LEU B . n B 1 26 TRP 26 26 26 TRP TRP B . n B 1 27 ALA 27 27 27 ALA ALA B . n B 1 28 PHE 28 28 28 PHE PHE B . n B 1 29 CYS 29 29 29 CYS CYS B . n B 1 30 CYS 30 30 30 CYS CYS B . 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 2 PEG 1 6073 6073 PEG PEG B . D 2 PEG 1 31 31 PEG PEG B . E 3 CL 1 33 33 CL CL B . F 4 HOH 1 31 31 HOH HOH A . F 4 HOH 2 32 32 HOH HOH A . F 4 HOH 3 33 33 HOH HOH A . F 4 HOH 4 34 34 HOH HOH A . F 4 HOH 5 35 35 HOH HOH A . F 4 HOH 6 36 36 HOH HOH A . F 4 HOH 7 37 37 HOH HOH A . F 4 HOH 8 38 38 HOH HOH A . F 4 HOH 9 39 39 HOH HOH A . F 4 HOH 10 40 40 HOH HOH A . F 4 HOH 11 41 41 HOH HOH A . F 4 HOH 12 42 42 HOH HOH A . F 4 HOH 13 43 43 HOH HOH A . F 4 HOH 14 44 44 HOH HOH A . F 4 HOH 15 45 45 HOH HOH A . F 4 HOH 16 46 46 HOH HOH A . F 4 HOH 17 47 47 HOH HOH A . F 4 HOH 18 48 48 HOH HOH A . F 4 HOH 19 49 49 HOH HOH A . F 4 HOH 20 50 50 HOH HOH A . F 4 HOH 21 51 51 HOH HOH A . F 4 HOH 22 52 52 HOH HOH A . F 4 HOH 23 53 53 HOH HOH A . F 4 HOH 24 54 54 HOH HOH A . F 4 HOH 25 55 55 HOH HOH A . F 4 HOH 26 57 57 HOH HOH A . G 4 HOH 1 34 34 HOH HOH B . G 4 HOH 2 35 35 HOH HOH B . G 4 HOH 3 36 36 HOH HOH B . G 4 HOH 4 37 37 HOH HOH B . G 4 HOH 5 38 38 HOH HOH B . G 4 HOH 6 39 39 HOH HOH B . G 4 HOH 7 40 40 HOH HOH B . G 4 HOH 8 41 41 HOH HOH B . G 4 HOH 9 42 42 HOH HOH B . G 4 HOH 10 43 43 HOH HOH B . G 4 HOH 11 44 44 HOH HOH B . G 4 HOH 12 45 45 HOH HOH B . G 4 HOH 13 46 46 HOH HOH B . G 4 HOH 14 47 47 HOH HOH B . G 4 HOH 15 48 48 HOH HOH B . G 4 HOH 16 49 49 HOH HOH B . G 4 HOH 17 50 50 HOH HOH B . G 4 HOH 18 51 51 HOH HOH B . G 4 HOH 19 52 52 HOH HOH B . G 4 HOH 20 53 53 HOH HOH B . G 4 HOH 21 54 54 HOH HOH B . G 4 HOH 22 55 55 HOH HOH B . G 4 HOH 23 56 56 HOH HOH B . G 4 HOH 24 57 57 HOH HOH B . G 4 HOH 25 58 58 HOH HOH B . G 4 HOH 26 59 59 HOH HOH B . G 4 HOH 27 60 60 HOH HOH B . G 4 HOH 28 61 61 HOH HOH B . G 4 HOH 29 62 62 HOH HOH B . G 4 HOH 30 63 63 HOH HOH B . G 4 HOH 31 64 64 HOH HOH B . G 4 HOH 32 65 65 HOH HOH B . G 4 HOH 33 66 66 HOH HOH B . # 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 REFMAC 5.5.0070 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 2 PDB_EXTRACT 3.005 'June 11, 2008' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 DENZO . ? ? ? ? 'data reduction' ? ? ? 4 SCALEPACK . ? ? ? ? 'data scaling' ? ? ? 5 PHASER . ? ? ? ? phasing ? ? ? # _cell.entry_id 3LO4 _cell.length_a 46.627 _cell.length_b 48.673 _cell.length_c 24.557 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LO4 _symmetry.space_group_name_H-M 'P 21 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 # _exptl.entry_id 3LO4 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.07 _exptl_crystal.density_percent_sol 40.57 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '20% PEG 4,000; 0.1 M sodium citrate tribasic dehydrate; 20% iso-propanol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K' # _diffrn.id 1 _diffrn.ambient_temp 100 _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 2009-04-08 _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 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.54 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU MICROMAX-007' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.54 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 3LO4 _reflns.observed_criterion_sigma_I 2.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 33.670 _reflns.d_resolution_high 1.750 _reflns.number_obs 5942 _reflns.number_all ? _reflns.percent_possible_obs 99.0 _reflns.pdbx_Rmerge_I_obs 0.05000 _reflns.pdbx_Rsym_value 0.04700 _reflns.pdbx_netI_over_sigmaI 25.7000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.800 _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.75 _reflns_shell.d_res_low 1.78 _reflns_shell.percent_possible_all 97.2 _reflns_shell.Rmerge_I_obs 0.56800 _reflns_shell.pdbx_Rsym_value 0.53600 _reflns_shell.meanI_over_sigI_obs 2.800 _reflns_shell.pdbx_redundancy 5.00 _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3LO4 _refine.ls_number_reflns_obs 5933 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 1.75 _refine.ls_percent_reflns_obs 99.0 _refine.ls_R_factor_obs 0.173 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.171 _refine.ls_R_factor_R_free 0.210 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.900 _refine.ls_number_reflns_R_free 293 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min 0.50 _refine.occupancy_max 1.00 _refine.correlation_coeff_Fo_to_Fc 0.970 _refine.correlation_coeff_Fo_to_Fc_free 0.958 _refine.B_iso_mean 22.99 _refine.aniso_B[1][1] -1.24000 _refine.aniso_B[2][2] -0.63000 _refine.aniso_B[3][3] 1.87000 _refine.aniso_B[1][2] 0.00000 _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 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'U VALUES : RESIDUAL ONLY' _refine.pdbx_starting_model 'PDB ENTRY 3GNY' _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 0.025 _refine.pdbx_overall_ESU_R_Free 0.025 _refine.overall_SU_ML 0.072 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 6.116 _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.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 464 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 15 _refine_hist.number_atoms_solvent 59 _refine_hist.number_atoms_total 538 _refine_hist.d_res_high 1.75 _refine_hist.d_res_low 20.00 # 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 0.016 0.022 ? 494 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.585 1.950 ? 666 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 7.831 5.000 ? 58 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 22.607 19.000 ? 20 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 11.323 15.000 ? 66 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 10.288 15.000 ? 6 'X-RAY DIFFRACTION' ? r_chiral_restr 0.112 0.200 ? 64 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.009 0.021 ? 376 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? '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 ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? '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 0.799 1.500 ? 296 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.331 2.000 ? 464 'X-RAY DIFFRACTION' ? r_scbond_it 2.060 3.000 ? 198 'X-RAY DIFFRACTION' ? r_scangle_it 3.281 4.500 ? 202 '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 20 _refine_ls_shell.d_res_high 1.75 _refine_ls_shell.d_res_low 1.80 _refine_ls_shell.number_reflns_R_work 351 _refine_ls_shell.R_factor_R_work 0.2600 _refine_ls_shell.percent_reflns_obs 89.40 _refine_ls_shell.R_factor_R_free 0.2890 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 20 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 3LO4 _struct.title 'Crystal structure of human alpha-defensin 1 (R24A mutant)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3LO4 _struct_keywords.text ;ANTIMICROBIAL PEPTIDE, HUMAN ALPHA DEFENSIN 1, HUMAN NEUTROPHIL PEPTIDE 1, HNP1, ANTIBIOTIC, ANTIMICROBIAL, Antiviral defense, Defensin, Disulfide bond, Fungicide, Phosphoprotein, Secreted, ANTIMICROBIAL PROTEIN ; _struct_keywords.pdbx_keywords 'ANTIMICROBIAL PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code DEF1_HUMAN _struct_ref.pdbx_db_accession P59665 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ACYCRIPACIAGERRYGTCIYQGRLWAFCC _struct_ref.pdbx_align_begin 65 _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3LO4 A 1 ? 30 ? P59665 65 ? 94 ? 1 30 2 1 3LO4 B 1 ? 30 ? P59665 65 ? 94 ? 1 30 # 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 3LO4 ALA A 24 ? UNP P59665 ARG 88 'engineered mutation' 24 1 2 3LO4 ALA B 24 ? UNP P59665 ARG 88 'engineered mutation' 24 2 # 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_defined_assembly ? monomeric 1 2 author_defined_assembly ? monomeric 1 3 software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 3 'ABSA (A^2)' 1030 ? 3 MORE -17 ? 3 'SSA (A^2)' 4540 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,F 2 1 B,C,D,E,G 3 1 A,B,C,D,E,F,G # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 2 SG ? ? ? 1_555 A CYS 30 SG ? ? A CYS 2 A CYS 30 1_555 ? ? ? ? ? ? ? 2.057 ? ? disulf2 disulf ? ? A CYS 4 SG ? ? ? 1_555 A CYS 19 SG ? ? A CYS 4 A CYS 19 1_555 ? ? ? ? ? ? ? 1.986 ? ? disulf3 disulf ? ? A CYS 9 SG ? ? ? 1_555 A CYS 29 SG ? ? A CYS 9 A CYS 29 1_555 ? ? ? ? ? ? ? 2.027 ? ? disulf4 disulf ? ? B CYS 2 SG ? ? ? 1_555 B CYS 30 SG ? ? B CYS 2 B CYS 30 1_555 ? ? ? ? ? ? ? 2.031 ? ? disulf5 disulf ? ? B CYS 4 SG ? ? ? 1_555 B CYS 19 SG ? ? B CYS 4 B CYS 19 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf6 disulf ? ? B CYS 9 SG ? ? ? 1_555 B CYS 29 SG ? ? B CYS 9 B CYS 29 1_555 ? ? ? ? ? ? ? 2.075 ? ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_modification_feature.ordinal _pdbx_modification_feature.label_comp_id _pdbx_modification_feature.label_asym_id _pdbx_modification_feature.label_seq_id _pdbx_modification_feature.label_alt_id _pdbx_modification_feature.modified_residue_label_comp_id _pdbx_modification_feature.modified_residue_label_asym_id _pdbx_modification_feature.modified_residue_label_seq_id _pdbx_modification_feature.modified_residue_label_alt_id _pdbx_modification_feature.auth_comp_id _pdbx_modification_feature.auth_asym_id _pdbx_modification_feature.auth_seq_id _pdbx_modification_feature.PDB_ins_code _pdbx_modification_feature.symmetry _pdbx_modification_feature.modified_residue_auth_comp_id _pdbx_modification_feature.modified_residue_auth_asym_id _pdbx_modification_feature.modified_residue_auth_seq_id _pdbx_modification_feature.modified_residue_PDB_ins_code _pdbx_modification_feature.modified_residue_symmetry _pdbx_modification_feature.comp_id_linking_atom _pdbx_modification_feature.modified_residue_id_linking_atom _pdbx_modification_feature.modified_residue_id _pdbx_modification_feature.ref_pcm_id _pdbx_modification_feature.ref_comp_id _pdbx_modification_feature.type _pdbx_modification_feature.category 1 CYS A 2 ? CYS A 30 ? CYS A 2 ? 1_555 CYS A 30 ? 1_555 SG SG . . . None 'Disulfide bridge' 2 CYS A 4 ? CYS A 19 ? CYS A 4 ? 1_555 CYS A 19 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS A 9 ? CYS A 29 ? CYS A 9 ? 1_555 CYS A 29 ? 1_555 SG SG . . . None 'Disulfide bridge' 4 CYS B 2 ? CYS B 30 ? CYS B 2 ? 1_555 CYS B 30 ? 1_555 SG SG . . . None 'Disulfide bridge' 5 CYS B 4 ? CYS B 19 ? CYS B 4 ? 1_555 CYS B 19 ? 1_555 SG SG . . . None 'Disulfide bridge' 6 CYS B 9 ? CYS B 29 ? CYS B 9 ? 1_555 CYS B 29 ? 1_555 SG SG . . . None 'Disulfide bridge' # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 ILE 6 A . ? ILE 6 A PRO 7 A ? PRO 7 A 1 5.81 2 ILE 6 B . ? ILE 6 B PRO 7 B ? PRO 7 B 1 8.15 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 7 _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 # 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 CYS A 2 ? ARG A 5 ? CYS A 2 ARG A 5 A 2 ALA A 24 ? CYS A 30 ? ALA A 24 CYS A 30 A 3 ARG A 14 ? TYR A 21 ? ARG A 14 TYR A 21 A 4 ARG B 14 ? TYR B 21 ? ARG B 14 TYR B 21 A 5 ALA B 24 ? CYS B 30 ? ALA B 24 CYS B 30 A 6 CYS B 2 ? ARG B 5 ? CYS B 2 ARG B 5 A 7 CYS A 2 ? ARG A 5 ? CYS A 2 ARG A 5 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N TYR A 3 ? N TYR A 3 O CYS A 29 ? O CYS A 29 A 2 3 O PHE A 28 ? O PHE A 28 N TYR A 16 ? N TYR A 16 A 3 4 N ILE A 20 ? N ILE A 20 O THR B 18 ? O THR B 18 A 4 5 N ARG B 14 ? N ARG B 14 O CYS B 30 ? O CYS B 30 A 5 6 O ALA B 27 ? O ALA B 27 N ARG B 5 ? N ARG B 5 A 6 7 O CYS B 2 ? O CYS B 2 N CYS A 2 ? N CYS A 2 # 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 B PEG 6073 ? 5 'BINDING SITE FOR RESIDUE PEG B 6073' AC2 Software B PEG 31 ? 5 'BINDING SITE FOR RESIDUE PEG B 31' AC3 Software B CL 33 ? 2 'BINDING SITE FOR RESIDUE CL B 33' # 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 TYR A 21 ? TYR A 21 . ? 1_555 ? 2 AC1 5 TRP A 26 ? TRP A 26 . ? 1_555 ? 3 AC1 5 PHE B 28 ? PHE B 28 . ? 1_555 ? 4 AC1 5 HOH G . ? HOH B 39 . ? 1_555 ? 5 AC1 5 HOH G . ? HOH B 53 . ? 1_555 ? 6 AC2 5 CYS B 4 ? CYS B 4 . ? 1_555 ? 7 AC2 5 TYR B 21 ? TYR B 21 . ? 1_555 ? 8 AC2 5 HOH G . ? HOH B 46 . ? 1_555 ? 9 AC2 5 HOH G . ? HOH B 51 . ? 1_555 ? 10 AC2 5 HOH G . ? HOH B 56 . ? 1_555 ? 11 AC3 2 PRO B 7 ? PRO B 7 . ? 1_555 ? 12 AC3 2 HOH G . ? HOH B 45 . ? 1_555 ? # _pdbx_entry_details.entry_id 3LO4 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification Y # 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 5.0472 -13.5411 -8.2395 0.0616 0.0815 0.0598 -0.0099 -0.0076 0.0161 0.5766 5.9683 1.3393 -0.5736 -0.3561 -0.5834 0.0649 -0.0487 -0.0162 -0.1264 0.0086 -0.2291 0.0904 -0.0214 -0.0147 'X-RAY DIFFRACTION' 2 ? refined 10.9702 -19.8237 -17.5822 0.0724 0.0193 0.0975 -0.0098 -0.0542 0.0048 7.8052 1.3516 3.6746 -2.9089 2.6017 -1.8359 -0.3109 -0.0091 0.3200 0.0910 0.5263 -0.2402 0.1070 -0.0665 -0.0410 # 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 1 A 30 ? . . . . ? 'X-RAY DIFFRACTION' 2 1 A 31 A 57 ? . . . . ? 'X-RAY DIFFRACTION' 3 2 B 1 B 30 ? . . . . ? 'X-RAY DIFFRACTION' 4 2 B 31 B 6073 ? . . . . ? 'X-RAY DIFFRACTION' 5 2 B 34 B 66 ? . . . . ? # 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 CL CL CL N N 41 CYS N N N N 42 CYS CA C N R 43 CYS C C N N 44 CYS O O N N 45 CYS CB C N N 46 CYS SG S N N 47 CYS OXT O N N 48 CYS H H N N 49 CYS H2 H N N 50 CYS HA H N N 51 CYS HB2 H N N 52 CYS HB3 H N N 53 CYS HG H N N 54 CYS HXT H N N 55 GLN N N N N 56 GLN CA C N S 57 GLN C C N N 58 GLN O O N N 59 GLN CB C N N 60 GLN CG C N N 61 GLN CD C N N 62 GLN OE1 O N N 63 GLN NE2 N N N 64 GLN OXT O N N 65 GLN H H N N 66 GLN H2 H N N 67 GLN HA H N N 68 GLN HB2 H N N 69 GLN HB3 H N N 70 GLN HG2 H N N 71 GLN HG3 H N N 72 GLN HE21 H N N 73 GLN HE22 H N N 74 GLN HXT H N N 75 GLU N N N N 76 GLU CA C N S 77 GLU C C N N 78 GLU O O N N 79 GLU CB C N N 80 GLU CG C N N 81 GLU CD C N N 82 GLU OE1 O N N 83 GLU OE2 O N N 84 GLU OXT O N N 85 GLU H H N N 86 GLU H2 H N N 87 GLU HA H N N 88 GLU HB2 H N N 89 GLU HB3 H N N 90 GLU HG2 H N N 91 GLU HG3 H N N 92 GLU HE2 H N N 93 GLU HXT H N N 94 GLY N N N N 95 GLY CA C N N 96 GLY C C N N 97 GLY O O N N 98 GLY OXT O N N 99 GLY H H N N 100 GLY H2 H N N 101 GLY HA2 H N N 102 GLY HA3 H N N 103 GLY HXT H N N 104 HOH O O N N 105 HOH H1 H N N 106 HOH H2 H N N 107 ILE N N N N 108 ILE CA C N S 109 ILE C C N N 110 ILE O O N N 111 ILE CB C N S 112 ILE CG1 C N N 113 ILE CG2 C N N 114 ILE CD1 C N N 115 ILE OXT O N N 116 ILE H H N N 117 ILE H2 H N N 118 ILE HA H N N 119 ILE HB H N N 120 ILE HG12 H N N 121 ILE HG13 H N N 122 ILE HG21 H N N 123 ILE HG22 H N N 124 ILE HG23 H N N 125 ILE HD11 H N N 126 ILE HD12 H N N 127 ILE HD13 H N N 128 ILE HXT H N N 129 LEU N N N N 130 LEU CA C N S 131 LEU C C N N 132 LEU O O N N 133 LEU CB C N N 134 LEU CG C N N 135 LEU CD1 C N N 136 LEU CD2 C N N 137 LEU OXT O N N 138 LEU H H N N 139 LEU H2 H N N 140 LEU HA H N N 141 LEU HB2 H N N 142 LEU HB3 H N N 143 LEU HG H N N 144 LEU HD11 H N N 145 LEU HD12 H N N 146 LEU HD13 H N N 147 LEU HD21 H N N 148 LEU HD22 H N N 149 LEU HD23 H N N 150 LEU HXT H N N 151 PEG C1 C N N 152 PEG O1 O N N 153 PEG C2 C N N 154 PEG O2 O N N 155 PEG C3 C N N 156 PEG C4 C N N 157 PEG O4 O N N 158 PEG H11 H N N 159 PEG H12 H N N 160 PEG HO1 H N N 161 PEG H21 H N N 162 PEG H22 H N N 163 PEG H31 H N N 164 PEG H32 H N N 165 PEG H41 H N N 166 PEG H42 H N N 167 PEG HO4 H N N 168 PHE N N N N 169 PHE CA C N S 170 PHE C C N N 171 PHE O O N N 172 PHE CB C N N 173 PHE CG C Y N 174 PHE CD1 C Y N 175 PHE CD2 C Y N 176 PHE CE1 C Y N 177 PHE CE2 C Y N 178 PHE CZ C Y N 179 PHE OXT O N N 180 PHE H H N N 181 PHE H2 H N N 182 PHE HA H N N 183 PHE HB2 H N N 184 PHE HB3 H N N 185 PHE HD1 H N N 186 PHE HD2 H N N 187 PHE HE1 H N N 188 PHE HE2 H N N 189 PHE HZ H N N 190 PHE HXT H N N 191 PRO N N N N 192 PRO CA C N S 193 PRO C C N N 194 PRO O O N N 195 PRO CB C N N 196 PRO CG C N N 197 PRO CD C N N 198 PRO OXT O N N 199 PRO H H N N 200 PRO HA H N N 201 PRO HB2 H N N 202 PRO HB3 H N N 203 PRO HG2 H N N 204 PRO HG3 H N N 205 PRO HD2 H N N 206 PRO HD3 H N N 207 PRO HXT H N N 208 THR N N N N 209 THR CA C N S 210 THR C C N N 211 THR O O N N 212 THR CB C N R 213 THR OG1 O N N 214 THR CG2 C N N 215 THR OXT O N N 216 THR H H N N 217 THR H2 H N N 218 THR HA H N N 219 THR HB H N N 220 THR HG1 H N N 221 THR HG21 H N N 222 THR HG22 H N N 223 THR HG23 H N N 224 THR HXT H N N 225 TRP N N N N 226 TRP CA C N S 227 TRP C C N N 228 TRP O O N N 229 TRP CB C N N 230 TRP CG C Y N 231 TRP CD1 C Y N 232 TRP CD2 C Y N 233 TRP NE1 N Y N 234 TRP CE2 C Y N 235 TRP CE3 C Y N 236 TRP CZ2 C Y N 237 TRP CZ3 C Y N 238 TRP CH2 C Y N 239 TRP OXT O N N 240 TRP H H N N 241 TRP H2 H N N 242 TRP HA H N N 243 TRP HB2 H N N 244 TRP HB3 H N N 245 TRP HD1 H N N 246 TRP HE1 H N N 247 TRP HE3 H N N 248 TRP HZ2 H N N 249 TRP HZ3 H N N 250 TRP HH2 H N N 251 TRP HXT H N N 252 TYR N N N N 253 TYR CA C N S 254 TYR C C N N 255 TYR O O N N 256 TYR CB C N N 257 TYR CG C Y N 258 TYR CD1 C Y N 259 TYR CD2 C Y N 260 TYR CE1 C Y N 261 TYR CE2 C Y N 262 TYR CZ C Y N 263 TYR OH O N N 264 TYR OXT O N N 265 TYR H H N N 266 TYR H2 H N N 267 TYR HA H N N 268 TYR HB2 H N N 269 TYR HB3 H N N 270 TYR HD1 H N N 271 TYR HD2 H N N 272 TYR HE1 H N N 273 TYR HE2 H N N 274 TYR HH H N N 275 TYR HXT H N N 276 # 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 CYS N CA sing N N 39 CYS N H sing N N 40 CYS N H2 sing N N 41 CYS CA C sing N N 42 CYS CA CB sing N N 43 CYS CA HA sing N N 44 CYS C O doub N N 45 CYS C OXT sing N N 46 CYS CB SG sing N N 47 CYS CB HB2 sing N N 48 CYS CB HB3 sing N N 49 CYS SG HG sing N N 50 CYS OXT HXT sing N N 51 GLN N CA sing N N 52 GLN N H sing N N 53 GLN N H2 sing N N 54 GLN CA C sing N N 55 GLN CA CB sing N N 56 GLN CA HA sing N N 57 GLN C O doub N N 58 GLN C OXT sing N N 59 GLN CB CG sing N N 60 GLN CB HB2 sing N N 61 GLN CB HB3 sing N N 62 GLN CG CD sing N N 63 GLN CG HG2 sing N N 64 GLN CG HG3 sing N N 65 GLN CD OE1 doub N N 66 GLN CD NE2 sing N N 67 GLN NE2 HE21 sing N N 68 GLN NE2 HE22 sing N N 69 GLN OXT HXT sing N N 70 GLU N CA sing N N 71 GLU N H sing N N 72 GLU N H2 sing N N 73 GLU CA C sing N N 74 GLU CA CB sing N N 75 GLU CA HA sing N N 76 GLU C O doub N N 77 GLU C OXT sing N N 78 GLU CB CG sing N N 79 GLU CB HB2 sing N N 80 GLU CB HB3 sing N N 81 GLU CG CD sing N N 82 GLU CG HG2 sing N N 83 GLU CG HG3 sing N N 84 GLU CD OE1 doub N N 85 GLU CD OE2 sing N N 86 GLU OE2 HE2 sing N N 87 GLU OXT HXT sing N N 88 GLY N CA sing N N 89 GLY N H sing N N 90 GLY N H2 sing N N 91 GLY CA C sing N N 92 GLY CA HA2 sing N N 93 GLY CA HA3 sing N N 94 GLY C O doub N N 95 GLY C OXT sing N N 96 GLY OXT HXT sing N N 97 HOH O H1 sing N N 98 HOH O H2 sing N N 99 ILE N CA sing N N 100 ILE N H sing N N 101 ILE N H2 sing N N 102 ILE CA C sing N N 103 ILE CA CB sing N N 104 ILE CA HA sing N N 105 ILE C O doub N N 106 ILE C OXT sing N N 107 ILE CB CG1 sing N N 108 ILE CB CG2 sing N N 109 ILE CB HB sing N N 110 ILE CG1 CD1 sing N N 111 ILE CG1 HG12 sing N N 112 ILE CG1 HG13 sing N N 113 ILE CG2 HG21 sing N N 114 ILE CG2 HG22 sing N N 115 ILE CG2 HG23 sing N N 116 ILE CD1 HD11 sing N N 117 ILE CD1 HD12 sing N N 118 ILE CD1 HD13 sing N N 119 ILE OXT HXT sing N N 120 LEU N CA sing N N 121 LEU N H sing N N 122 LEU N H2 sing N N 123 LEU CA C sing N N 124 LEU CA CB sing N N 125 LEU CA HA sing N N 126 LEU C O doub N N 127 LEU C OXT sing N N 128 LEU CB CG sing N N 129 LEU CB HB2 sing N N 130 LEU CB HB3 sing N N 131 LEU CG CD1 sing N N 132 LEU CG CD2 sing N N 133 LEU CG HG sing N N 134 LEU CD1 HD11 sing N N 135 LEU CD1 HD12 sing N N 136 LEU CD1 HD13 sing N N 137 LEU CD2 HD21 sing N N 138 LEU CD2 HD22 sing N N 139 LEU CD2 HD23 sing N N 140 LEU OXT HXT sing N N 141 PEG C1 O1 sing N N 142 PEG C1 C2 sing N N 143 PEG C1 H11 sing N N 144 PEG C1 H12 sing N N 145 PEG O1 HO1 sing N N 146 PEG C2 O2 sing N N 147 PEG C2 H21 sing N N 148 PEG C2 H22 sing N N 149 PEG O2 C3 sing N N 150 PEG C3 C4 sing N N 151 PEG C3 H31 sing N N 152 PEG C3 H32 sing N N 153 PEG C4 O4 sing N N 154 PEG C4 H41 sing N N 155 PEG C4 H42 sing N N 156 PEG O4 HO4 sing N N 157 PHE N CA sing N N 158 PHE N H sing N N 159 PHE N H2 sing N N 160 PHE CA C sing N N 161 PHE CA CB sing N N 162 PHE CA HA sing N N 163 PHE C O doub N N 164 PHE C OXT sing N N 165 PHE CB CG sing N N 166 PHE CB HB2 sing N N 167 PHE CB HB3 sing N N 168 PHE CG CD1 doub Y N 169 PHE CG CD2 sing Y N 170 PHE CD1 CE1 sing Y N 171 PHE CD1 HD1 sing N N 172 PHE CD2 CE2 doub Y N 173 PHE CD2 HD2 sing N N 174 PHE CE1 CZ doub Y N 175 PHE CE1 HE1 sing N N 176 PHE CE2 CZ sing Y N 177 PHE CE2 HE2 sing N N 178 PHE CZ HZ sing N N 179 PHE OXT HXT sing N N 180 PRO N CA sing N N 181 PRO N CD sing N N 182 PRO N H sing N N 183 PRO CA C sing N N 184 PRO CA CB sing N N 185 PRO CA HA sing N N 186 PRO C O doub N N 187 PRO C OXT sing N N 188 PRO CB CG sing N N 189 PRO CB HB2 sing N N 190 PRO CB HB3 sing N N 191 PRO CG CD sing N N 192 PRO CG HG2 sing N N 193 PRO CG HG3 sing N N 194 PRO CD HD2 sing N N 195 PRO CD HD3 sing N N 196 PRO OXT HXT sing N N 197 THR N CA sing N N 198 THR N H sing N N 199 THR N H2 sing N N 200 THR CA C sing N N 201 THR CA CB sing N N 202 THR CA HA sing N N 203 THR C O doub N N 204 THR C OXT sing N N 205 THR CB OG1 sing N N 206 THR CB CG2 sing N N 207 THR CB HB sing N N 208 THR OG1 HG1 sing N N 209 THR CG2 HG21 sing N N 210 THR CG2 HG22 sing N N 211 THR CG2 HG23 sing N N 212 THR OXT HXT sing N N 213 TRP N CA sing N N 214 TRP N H sing N N 215 TRP N H2 sing N N 216 TRP CA C sing N N 217 TRP CA CB sing N N 218 TRP CA HA sing N N 219 TRP C O doub N N 220 TRP C OXT sing N N 221 TRP CB CG sing N N 222 TRP CB HB2 sing N N 223 TRP CB HB3 sing N N 224 TRP CG CD1 doub Y N 225 TRP CG CD2 sing Y N 226 TRP CD1 NE1 sing Y N 227 TRP CD1 HD1 sing N N 228 TRP CD2 CE2 doub Y N 229 TRP CD2 CE3 sing Y N 230 TRP NE1 CE2 sing Y N 231 TRP NE1 HE1 sing N N 232 TRP CE2 CZ2 sing Y N 233 TRP CE3 CZ3 doub Y N 234 TRP CE3 HE3 sing N N 235 TRP CZ2 CH2 doub Y N 236 TRP CZ2 HZ2 sing N N 237 TRP CZ3 CH2 sing Y N 238 TRP CZ3 HZ3 sing N N 239 TRP CH2 HH2 sing N N 240 TRP OXT HXT sing N N 241 TYR N CA sing N N 242 TYR N H sing N N 243 TYR N H2 sing N N 244 TYR CA C sing N N 245 TYR CA CB sing N N 246 TYR CA HA sing N N 247 TYR C O doub N N 248 TYR C OXT sing N N 249 TYR CB CG sing N N 250 TYR CB HB2 sing N N 251 TYR CB HB3 sing N N 252 TYR CG CD1 doub Y N 253 TYR CG CD2 sing Y N 254 TYR CD1 CE1 sing Y N 255 TYR CD1 HD1 sing N N 256 TYR CD2 CE2 doub Y N 257 TYR CD2 HD2 sing N N 258 TYR CE1 CZ doub Y N 259 TYR CE1 HE1 sing N N 260 TYR CE2 CZ sing Y N 261 TYR CE2 HE2 sing N N 262 TYR CZ OH sing N N 263 TYR OH HH sing N N 264 TYR OXT HXT sing N N 265 # _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 3GNY _pdbx_initial_refinement_model.details 'PDB ENTRY 3GNY' # loop_ _pdbx_reflns_twin.domain_id _pdbx_reflns_twin.crystal_id _pdbx_reflns_twin.diffrn_id _pdbx_reflns_twin.type _pdbx_reflns_twin.operator _pdbx_reflns_twin.fraction 1 1 1 ? 'H, K, L' 0.955 2 1 1 ? 'K, H, -L' 0.045 # _atom_sites.entry_id 3LO4 _atom_sites.fract_transf_matrix[1][1] 0.021447 _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] 0.020545 _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] 0.040722 _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 CL N O S # loop_