data_1BYZ # _entry.id 1BYZ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.399 _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 1BYZ pdb_00001byz 10.2210/pdb1byz/pdb RCSB RCSB008155 ? ? WWPDB D_1000008155 ? ? # 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 1998-10-28 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2018-05-30 6 'Structure model' 2 0 2023-11-15 7 'Structure model' 2 1 2024-04-03 8 'Structure model' 2 2 2024-11-20 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Atomic model' 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Refinement description' 5 5 'Structure model' 'Data collection' 6 5 'Structure model' 'Experimental preparation' 7 5 'Structure model' 'Source and taxonomy' 8 5 'Structure model' 'Structure summary' 9 6 'Structure model' 'Atomic model' 10 6 'Structure model' 'Data collection' 11 6 'Structure model' 'Database references' 12 6 'Structure model' 'Derived calculations' 13 7 'Structure model' 'Refinement description' 14 8 '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' software 2 5 'Structure model' entity 3 5 'Structure model' exptl_crystal 4 5 'Structure model' pdbx_entity_src_syn 5 6 'Structure model' atom_site 6 6 'Structure model' atom_site_anisotrop 7 6 'Structure model' chem_comp_atom 8 6 'Structure model' chem_comp_bond 9 6 'Structure model' database_2 10 6 'Structure model' struct_conn 11 6 'Structure model' struct_site 12 7 'Structure model' pdbx_initial_refinement_model 13 8 'Structure model' pdbx_entry_details 14 8 '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 5 'Structure model' '_entity.src_method' 2 5 'Structure model' '_exptl_crystal.density_Matthews' 3 5 'Structure model' '_exptl_crystal.density_percent_sol' 4 6 'Structure model' '_atom_site.B_iso_or_equiv' 5 6 'Structure model' '_atom_site.Cartn_x' 6 6 'Structure model' '_atom_site.Cartn_y' 7 6 'Structure model' '_atom_site.Cartn_z' 8 6 'Structure model' '_atom_site.auth_atom_id' 9 6 'Structure model' '_atom_site.label_atom_id' 10 6 'Structure model' '_atom_site_anisotrop.U[1][1]' 11 6 'Structure model' '_atom_site_anisotrop.U[2][2]' 12 6 'Structure model' '_atom_site_anisotrop.U[3][3]' 13 6 'Structure model' '_atom_site_anisotrop.pdbx_auth_atom_id' 14 6 'Structure model' '_atom_site_anisotrop.pdbx_label_atom_id' 15 6 'Structure model' '_database_2.pdbx_DOI' 16 6 'Structure model' '_database_2.pdbx_database_accession' 17 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 18 6 'Structure model' '_struct_site.pdbx_auth_asym_id' 19 6 'Structure model' '_struct_site.pdbx_auth_comp_id' 20 6 'Structure model' '_struct_site.pdbx_auth_seq_id' 21 8 'Structure model' '_pdbx_entry_details.has_protein_modification' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1BYZ _pdbx_database_status.recvd_initial_deposition_date 1998-10-20 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Prive, G.G.' 1 'Anderson, D.H.' 2 'Wesson, L.' 3 'Cascio, D.' 4 'Eisenberg, D.' 5 # 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 'Packed protein bilayers in the 0.90 A resolution structure of a designed alpha helical bundle.' 'Protein Sci.' 8 1400 1409 1999 PRCIEI US 0961-8368 0795 ? 10422828 ? 1 'Centrosymmetric Bilayers in the 0.75A Resolution Structure of a Designed Alpha- Helical Peptide, D, L-Alpha-1' 'Protein Sci.' 8 1410 ? 1999 PRCIEI US 0961-8368 0795 ? ? ? 2 'Crystal Structure of Alpha-1: Implications for Protein Design' Science 249 543 ? 1990 SCIEAS US 0036-8075 0038 ? ? ? 3 'The Design, Synthesis, and Crystallization of an Alpha-Helical Peptide' Proteins 1 16 ? 1986 PSFGEY US 0887-3585 0867 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Prive, G.G.' 1 ? primary 'Anderson, D.H.' 2 ? primary 'Wesson, L.' 3 ? primary 'Cascio, D.' 4 ? primary 'Eisenberg, D.' 5 ? 1 'Patterson, W.R.' 6 ? 1 'Anderson, D.H.' 7 ? 1 'Degrado, W.F.' 8 ? 1 'Cascio, D.' 9 ? 1 'Eisenberg, D.' 10 ? 2 'Hill, C.P.' 11 ? 2 'Anderson, D.H.' 12 ? 2 'Wesson, L.' 13 ? 2 'Degrado, W.F.' 14 ? 2 'Eisenberg, D.' 15 ? 3 'Eisenberg, D.' 16 ? 3 'Wilcox, W.' 17 ? 3 'Eshita, S.M.' 18 ? 3 'Pryciak, P.M.' 19 ? 3 'Ho, S.P.' 20 ? 3 'De Grado, W.F.' 21 ? # 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 ;PROTEIN (SYNTHETIC DESIGNED PEPTIDE "ALPHA-1") ; 1441.775 4 ? ? ? 'N TERMINI ARE ACETYLATED' 2 non-polymer syn ETHANOLAMINE 61.083 2 ? ? ? ? 3 non-polymer syn '(4S)-2-METHYL-2,4-PENTANEDIOL' 118.174 3 ? ? ? ? 4 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 5 non-polymer syn '(4R)-2-METHYLPENTANE-2,4-DIOL' 118.174 1 ? ? ? ? 6 water nat water 18.015 30 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(ACE)ELLKKLLEELKG' _entity_poly.pdbx_seq_one_letter_code_can XELLKKLLEELKG _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 ETHANOLAMINE ETA 3 '(4S)-2-METHYL-2,4-PENTANEDIOL' MPD 4 'CHLORIDE ION' CL 5 '(4R)-2-METHYLPENTANE-2,4-DIOL' MRD 6 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ACE n 1 2 GLU n 1 3 LEU n 1 4 LEU n 1 5 LYS n 1 6 LYS n 1 7 LEU n 1 8 LEU n 1 9 GLU n 1 10 GLU n 1 11 LEU n 1 12 LYS n 1 13 GLY 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 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 ACE non-polymer . 'ACETYL GROUP' ? 'C2 H4 O' 44.053 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 ETA 'L-peptide COOH carboxy terminus' . ETHANOLAMINE ? 'C2 H7 N O' 61.083 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 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 MPD non-polymer . '(4S)-2-METHYL-2,4-PENTANEDIOL' ? 'C6 H14 O2' 118.174 MRD non-polymer . '(4R)-2-METHYLPENTANE-2,4-DIOL' ? 'C6 H14 O2' 118.174 # 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 ACE 1 100 100 ACE ACE A . n A 1 2 GLU 2 101 101 GLU GLU A . n A 1 3 LEU 3 102 102 LEU LEU A . n A 1 4 LEU 4 103 103 LEU LEU A . n A 1 5 LYS 5 104 104 LYS LYS A . n A 1 6 LYS 6 105 105 LYS LYS A . n A 1 7 LEU 7 106 106 LEU LEU A . n A 1 8 LEU 8 107 107 LEU LEU A . n A 1 9 GLU 9 108 108 GLU GLU A . n A 1 10 GLU 10 109 109 GLU GLU A . n A 1 11 LEU 11 110 110 LEU LEU A . n A 1 12 LYS 12 111 111 LYS LYS A . n A 1 13 GLY 13 112 112 GLY GLY A . n B 1 1 ACE 1 200 200 ACE ACE B . n B 1 2 GLU 2 201 201 GLU GLU B . n B 1 3 LEU 3 202 202 LEU LEU B . n B 1 4 LEU 4 203 203 LEU LEU B . n B 1 5 LYS 5 204 204 LYS LYS B . n B 1 6 LYS 6 205 205 LYS LYS B . n B 1 7 LEU 7 206 206 LEU LEU B . n B 1 8 LEU 8 207 207 LEU LEU B . n B 1 9 GLU 9 208 208 GLU GLU B . n B 1 10 GLU 10 209 209 GLU GLU B . n B 1 11 LEU 11 210 210 LEU LEU B . n B 1 12 LYS 12 211 211 LYS LYS B . n B 1 13 GLY 13 212 212 GLY GLY B . n C 1 1 ACE 1 300 300 ACE ACE C . n C 1 2 GLU 2 301 301 GLU GLU C . n C 1 3 LEU 3 302 302 LEU LEU C . n C 1 4 LEU 4 303 303 LEU LEU C . n C 1 5 LYS 5 304 304 LYS LYS C . n C 1 6 LYS 6 305 305 LYS LYS C . n C 1 7 LEU 7 306 306 LEU LEU C . n C 1 8 LEU 8 307 307 LEU LEU C . n C 1 9 GLU 9 308 308 GLU GLU C . n C 1 10 GLU 10 309 309 GLU GLU C . n C 1 11 LEU 11 310 310 LEU LEU C . n C 1 12 LYS 12 311 311 LYS LYS C . n C 1 13 GLY 13 312 312 GLY GLY C . n D 1 1 ACE 1 400 400 ACE ACE D . n D 1 2 GLU 2 401 401 GLU GLU D . n D 1 3 LEU 3 402 402 LEU LEU D . n D 1 4 LEU 4 403 403 LEU LEU D . n D 1 5 LYS 5 404 404 LYS LYS D . n D 1 6 LYS 6 405 405 LYS LYS D . n D 1 7 LEU 7 406 406 LEU LEU D . n D 1 8 LEU 8 407 407 LEU LEU D . n D 1 9 GLU 9 408 408 GLU GLU D . n D 1 10 GLU 10 409 409 GLU GLU D . n D 1 11 LEU 11 410 410 LEU LEU D . n D 1 12 LYS 12 411 411 LYS LYS D . n D 1 13 GLY 13 412 412 GLY GLY D . 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 E 2 ETA 1 502 502 ETA ETA A . F 3 MPD 1 513 513 MPD MPD A . G 3 MPD 1 511 511 MPD MPD B . H 4 CL 1 520 520 CL CL C . I 2 ETA 1 501 501 ETA ETA C . J 5 MRD 1 510 510 MRD MPD D . K 3 MPD 1 512 512 MPD MPD D . L 6 HOH 1 602 602 HOH HOH A . L 6 HOH 2 603 603 HOH HOH A . L 6 HOH 3 604 604 HOH HOH A . L 6 HOH 4 605 605 HOH HOH A . L 6 HOH 5 619 619 HOH HOH A . L 6 HOH 6 623 623 HOH HOH A . M 6 HOH 1 606 606 HOH HOH B . M 6 HOH 2 614 614 HOH HOH B . M 6 HOH 3 629 629 HOH HOH B . M 6 HOH 4 630 630 HOH HOH B . M 6 HOH 5 632 632 HOH HOH B . M 6 HOH 6 633 633 HOH HOH B . M 6 HOH 7 634 634 HOH HOH B . N 6 HOH 1 610 610 HOH HOH C . N 6 HOH 2 613 613 HOH HOH C . N 6 HOH 3 616 616 HOH HOH C . N 6 HOH 4 618 618 HOH HOH C . N 6 HOH 5 631 631 HOH HOH C . O 6 HOH 1 601 601 HOH HOH D . O 6 HOH 2 607 607 HOH HOH D . O 6 HOH 3 608 608 HOH HOH D . O 6 HOH 4 609 609 HOH HOH D . O 6 HOH 5 611 611 HOH HOH D . O 6 HOH 6 612 612 HOH HOH D . O 6 HOH 7 615 615 HOH HOH D . O 6 HOH 8 617 617 HOH HOH D . O 6 HOH 9 621 621 HOH HOH D . O 6 HOH 10 624 624 HOH HOH D . O 6 HOH 11 627 627 HOH HOH D . O 6 HOH 12 628 628 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal _software.date _software.type _software.location _software.language SHAKE 'model building' . ? 1 ? ? ? ? SnB phasing '(SNB 1.5) MILLER' ? 2 ? ? ? ? SHELXL refinement . ? 3 ? ? ? ? SHELXL-97 refinement . ? 4 ? ? ? ? DENZO 'data reduction' '(DENZO)' ? 5 ? ? ? ? SCALEPACK 'data scaling' '(DENZO)' ? 6 ? ? ? ? # _cell.entry_id 1BYZ _cell.length_a 20.846 _cell.length_b 20.909 _cell.length_c 27.057 _cell.angle_alpha 102.40 _cell.angle_beta 95.33 _cell.angle_gamma 119.62 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BYZ _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 1BYZ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.69 _exptl_crystal.density_percent_sol 27.13 _exptl_crystal.description 'SNB SUCCESS RATE WAS 5%.' _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.0 _exptl_crystal_grow.pdbx_details '91% 2-METHYL-2,4-PENTANEDIOL, 78mM TRIETHANOLAMINE-HCL pH8, 52mM ETHANOLAMINE-HCL pH9.75, pH 8.0, VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1994-11-15 _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 SI _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X12C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X12C _diffrn_source.pdbx_wavelength 0.9 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1BYZ _reflns.observed_criterion_sigma_I 1.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 25.700 _reflns.d_resolution_high 0.900 _reflns.number_obs 23681 _reflns.number_all ? _reflns.percent_possible_obs 85.9 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.076 _reflns.pdbx_netI_over_sigmaI 16.3000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 3.300 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 0.90 _reflns_shell.d_res_low 0.93 _reflns_shell.percent_possible_all 36.0 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.141 _reflns_shell.meanI_over_sigI_obs 4.300 _reflns_shell.pdbx_redundancy 1.30 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1BYZ _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all 23681 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 25.7 _refine.ls_d_res_high 0.90 _refine.ls_percent_reflns_obs 85.9 _refine.ls_R_factor_obs 0.085 _refine.ls_R_factor_all 0.086 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.105 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.00 _refine.ls_number_reflns_R_free 2368 _refine.ls_number_parameters 4695 _refine.ls_number_restraints 5898 _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 'MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-2' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method 'FREE R' _refine.details ;MORE LOW-OCCUPANCY DISCRETE DISORDER COULD BE BUILT FOR SOLVENT AND PEPTIDE, BUT WOULD EXCESSIVELY INCREASE THE NUMBER OF REFINEABLE PARAMETERS. ; _refine.pdbx_starting_model '448 RANDOM ATOMS' _refine.pdbx_method_to_determine_struct 'DIRECT METHODS' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'ENGH AND HUBER' _refine.pdbx_stereochem_target_val_spec_case 'ETHANOLAMINE AND MPD RESTRAINTS WERE DERIVED BY ANALOGY TO OTHER SIMILAR GROUPS' _refine.pdbx_R_Free_selection_details 'EVERY TENTH REFLECTION SAME TEST SET FOR SHELXL-93 AND SHELXL-97' _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _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_analyze.entry_id 1BYZ _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 7 _refine_analyze.occupancy_sum_hydrogen 544.00 _refine_analyze.occupancy_sum_non_hydrogen 478.97 _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 408 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 41 _refine_hist.number_atoms_solvent 30 _refine_hist.number_atoms_total 479 _refine_hist.d_res_high 0.90 _refine_hist.d_res_low 25.7 # 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 s_bond_d 0.025 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist 0.016 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.017 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol 0.065 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.192 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.026 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.108 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 1BYZ _pdbx_refine.R_factor_all_no_cutoff 0.086 _pdbx_refine.R_factor_obs_no_cutoff 0.085 _pdbx_refine.free_R_factor_no_cutoff 0.105 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 10.00 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 2368 _pdbx_refine.R_factor_all_4sig_cutoff 0.081 _pdbx_refine.R_factor_obs_4sig_cutoff 0.08 _pdbx_refine.free_R_factor_4sig_cutoff 0.098 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 9.20 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 2179 _pdbx_refine.number_reflns_obs_4sig_cutoff 21831 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 1BYZ _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 # _struct.entry_id 1BYZ _struct.title 'DESIGNED PEPTIDE ALPHA-1, P1 FORM' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1BYZ _struct_keywords.pdbx_keywords 'DE NOVO PROTEIN' _struct_keywords.text 'HELICAL BILAYER; BIOMATERIAL, DE NOVO 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 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 4 ? I N N 2 ? J N N 5 ? K N N 3 ? L N N 6 ? M N N 6 ? N N N 6 ? O N N 6 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1BYZ _struct_ref.pdbx_db_accession 1BYZ _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1BYZ A 1 ? 13 ? 1BYZ 100 ? 112 ? 100 112 2 1 1BYZ B 1 ? 13 ? 1BYZ 200 ? 212 ? 200 212 3 1 1BYZ C 1 ? 13 ? 1BYZ 300 ? 312 ? 300 312 4 1 1BYZ D 1 ? 13 ? 1BYZ 400 ? 412 ? 400 412 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLU A 2 ? GLY A 13 ? GLU A 101 GLY A 112 1 ? 12 HELX_P HELX_P2 2 GLU B 2 ? GLY B 13 ? GLU B 201 GLY B 212 1 ? 12 HELX_P HELX_P3 3 GLU C 2 ? GLY C 13 ? GLU C 301 GLY C 312 1 ? 12 HELX_P HELX_P4 4 GLU D 2 ? GLY D 13 ? GLU D 401 GLY D 412 1 ? 12 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A ACE 1 C ? ? ? 1_555 A GLU 2 N ? ? A ACE 100 A GLU 101 1_555 ? ? ? ? ? ? ? 1.348 ? ? covale2 covale both ? B ACE 1 C ? ? ? 1_555 B GLU 2 N ? ? B ACE 200 B GLU 201 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale3 covale both ? C ACE 1 C ? ? ? 1_555 C GLU 2 N ? ? C ACE 300 C GLU 301 1_555 ? ? ? ? ? ? ? 1.345 ? ? covale4 covale both ? D ACE 1 C ? ? ? 1_555 D GLU 2 N ? ? D ACE 400 D GLU 401 1_555 ? ? ? ? ? ? ? 1.360 ? ? # _struct_conn_type.id covale _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 ACE A 1 ? GLU A 2 ? ACE A 100 ? 1_555 GLU A 101 ? 1_555 . . GLU 10 ACE None 'Terminal acetylation' 2 ACE B 1 ? GLU B 2 ? ACE B 200 ? 1_555 GLU B 201 ? 1_555 . . GLU 10 ACE None 'Terminal acetylation' 3 ACE C 1 ? GLU C 2 ? ACE C 300 ? 1_555 GLU C 301 ? 1_555 . . GLU 10 ACE None 'Terminal acetylation' 4 ACE D 1 ? GLU D 2 ? ACE D 400 ? 1_555 GLU D 401 ? 1_555 . . GLU 10 ACE None 'Terminal acetylation' # 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 C CL 520 ? 4 'BINDING SITE FOR RESIDUE CL C 520' AC2 Software D MRD 510 ? 4 'BINDING SITE FOR RESIDUE MRD D 510' AC3 Software C ETA 501 ? 6 'BINDING SITE FOR RESIDUE ETA C 501' AC4 Software A ETA 502 ? 4 'BINDING SITE FOR RESIDUE ETA A 502' AC5 Software B MPD 511 ? 3 'BINDING SITE FOR RESIDUE MPD B 511' AC6 Software D MPD 512 ? 4 'BINDING SITE FOR RESIDUE MPD D 512' AC7 Software A MPD 513 ? 10 'BINDING SITE FOR RESIDUE MPD A 513' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 LYS A 5 ? LYS A 104 . ? 1_544 ? 2 AC1 4 LYS B 5 ? LYS B 204 . ? 1_644 ? 3 AC1 4 LYS C 12 ? LYS C 311 . ? 1_555 ? 4 AC1 4 LYS D 6 ? LYS D 405 . ? 1_545 ? 5 AC2 4 ACE D 1 ? ACE D 400 . ? 1_455 ? 6 AC2 4 LEU D 3 ? LEU D 402 . ? 1_455 ? 7 AC2 4 LEU D 4 ? LEU D 403 . ? 1_455 ? 8 AC2 4 LEU D 11 ? LEU D 410 . ? 1_555 ? 9 AC3 6 GLU A 10 ? GLU A 109 . ? 1_544 ? 10 AC3 6 GLY A 13 ? GLY A 112 . ? 1_544 ? 11 AC3 6 HOH L . ? HOH A 604 . ? 1_544 ? 12 AC3 6 GLU C 2 ? GLU C 301 . ? 1_555 ? 13 AC3 6 LYS C 5 ? LYS C 304 . ? 1_555 ? 14 AC3 6 GLU C 9 ? GLU C 308 . ? 1_555 ? 15 AC4 4 LYS A 6 ? LYS A 105 . ? 1_455 ? 16 AC4 4 GLY A 13 ? GLY A 112 . ? 1_555 ? 17 AC4 4 GLU B 10 ? GLU B 209 . ? 1_565 ? 18 AC4 4 GLY C 13 ? GLY C 312 . ? 1_466 ? 19 AC5 3 LEU A 4 ? LEU A 103 . ? 1_555 ? 20 AC5 3 LEU B 11 ? LEU B 210 . ? 1_555 ? 21 AC5 3 MPD K . ? MPD D 512 . ? 1_555 ? 22 AC6 4 MPD G . ? MPD B 511 . ? 1_555 ? 23 AC6 4 LEU C 11 ? LEU C 310 . ? 1_455 ? 24 AC6 4 LEU D 3 ? LEU D 402 . ? 1_455 ? 25 AC6 4 GLU D 10 ? GLU D 409 . ? 1_555 ? 26 AC7 10 ACE A 1 ? ACE A 100 . ? 1_455 ? 27 AC7 10 LEU A 3 ? LEU A 102 . ? 1_455 ? 28 AC7 10 GLU A 10 ? GLU A 109 . ? 1_555 ? 29 AC7 10 LEU A 11 ? LEU A 110 . ? 1_555 ? 30 AC7 10 HOH L . ? HOH A 619 . ? 1_455 ? 31 AC7 10 LEU B 4 ? LEU B 203 . ? 1_555 ? 32 AC7 10 GLU B 10 ? GLU B 209 . ? 1_565 ? 33 AC7 10 HOH M . ? HOH B 614 . ? 1_665 ? 34 AC7 10 HOH M . ? HOH B 633 . ? 1_565 ? 35 AC7 10 LEU D 7 ? LEU D 406 . ? 1_455 ? # _pdbx_entry_details.entry_id 1BYZ _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ;MPD 513 IS BUILT IN TWO OVERLAPPING CONFORMATIONS. ALL THE WATERS ARE IN SINGLE SITES. ; _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification Y # 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 HZ1 C LYS 304 ? ? HO C ETA 501 ? ? 1.35 2 1 O D HOH 624 ? ? O D HOH 628 ? ? 2.18 # 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 ACE C C N N 1 ACE O O N N 2 ACE CH3 C N N 3 ACE H H N N 4 ACE H1 H N N 5 ACE H2 H N N 6 ACE H3 H N N 7 CL CL CL N N 8 ETA CA C N N 9 ETA N N N N 10 ETA C C N N 11 ETA O O N N 12 ETA HA1 H N N 13 ETA HA2 H N N 14 ETA H H N N 15 ETA H2 H N N 16 ETA HB1 H N N 17 ETA HB2 H N N 18 ETA HO H N N 19 GLU N N N N 20 GLU CA C N S 21 GLU C C N N 22 GLU O O N N 23 GLU CB C N N 24 GLU CG C N N 25 GLU CD C N N 26 GLU OE1 O N N 27 GLU OE2 O N N 28 GLU OXT O N N 29 GLU H H N N 30 GLU H2 H N N 31 GLU HA H N N 32 GLU HB2 H N N 33 GLU HB3 H N N 34 GLU HG2 H N N 35 GLU HG3 H N N 36 GLU HE2 H N N 37 GLU HXT H N N 38 GLY N N N N 39 GLY CA C N N 40 GLY C C N N 41 GLY O O N N 42 GLY OXT O N N 43 GLY H H N N 44 GLY H2 H N N 45 GLY HA2 H N N 46 GLY HA3 H N N 47 GLY HXT H N N 48 HOH O O N N 49 HOH H1 H N N 50 HOH H2 H N N 51 LEU N N N N 52 LEU CA C N S 53 LEU C C N N 54 LEU O O N N 55 LEU CB C N N 56 LEU CG C N N 57 LEU CD1 C N N 58 LEU CD2 C N N 59 LEU OXT O N N 60 LEU H H N N 61 LEU H2 H N N 62 LEU HA H N N 63 LEU HB2 H N N 64 LEU HB3 H N N 65 LEU HG H N N 66 LEU HD11 H N N 67 LEU HD12 H N N 68 LEU HD13 H N N 69 LEU HD21 H N N 70 LEU HD22 H N N 71 LEU HD23 H N N 72 LEU HXT H N N 73 LYS N N N N 74 LYS CA C N S 75 LYS C C N N 76 LYS O O N N 77 LYS CB C N N 78 LYS CG C N N 79 LYS CD C N N 80 LYS CE C N N 81 LYS NZ N N N 82 LYS OXT O N N 83 LYS H H N N 84 LYS H2 H N N 85 LYS HA H N N 86 LYS HB2 H N N 87 LYS HB3 H N N 88 LYS HG2 H N N 89 LYS HG3 H N N 90 LYS HD2 H N N 91 LYS HD3 H N N 92 LYS HE2 H N N 93 LYS HE3 H N N 94 LYS HZ1 H N N 95 LYS HZ2 H N N 96 LYS HZ3 H N N 97 LYS HXT H N N 98 MPD C1 C N N 99 MPD C2 C N N 100 MPD O2 O N N 101 MPD CM C N N 102 MPD C3 C N N 103 MPD C4 C N S 104 MPD O4 O N N 105 MPD C5 C N N 106 MPD H11 H N N 107 MPD H12 H N N 108 MPD H13 H N N 109 MPD HO2 H N N 110 MPD HM1 H N N 111 MPD HM2 H N N 112 MPD HM3 H N N 113 MPD H31 H N N 114 MPD H32 H N N 115 MPD H4 H N N 116 MPD HO4 H N N 117 MPD H51 H N N 118 MPD H52 H N N 119 MPD H53 H N N 120 MRD C1 C N N 121 MRD C2 C N N 122 MRD O2 O N N 123 MRD CM C N N 124 MRD C3 C N N 125 MRD C4 C N R 126 MRD O4 O N N 127 MRD C5 C N N 128 MRD H1C1 H N N 129 MRD H1C2 H N N 130 MRD H1C3 H N N 131 MRD H2 H N N 132 MRD HMC1 H N N 133 MRD HMC2 H N N 134 MRD HMC3 H N N 135 MRD H3C1 H N N 136 MRD H3C2 H N N 137 MRD H4 H N N 138 MRD HA H N N 139 MRD H5C1 H N N 140 MRD H5C2 H N N 141 MRD H5C3 H N N 142 # 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 ACE C O doub N N 1 ACE C CH3 sing N N 2 ACE C H sing N N 3 ACE CH3 H1 sing N N 4 ACE CH3 H2 sing N N 5 ACE CH3 H3 sing N N 6 ETA CA N sing N N 7 ETA CA C sing N N 8 ETA CA HA1 sing N N 9 ETA CA HA2 sing N N 10 ETA N H sing N N 11 ETA N H2 sing N N 12 ETA C O sing N N 13 ETA C HB1 sing N N 14 ETA C HB2 sing N N 15 ETA O HO sing N N 16 GLU N CA sing N N 17 GLU N H sing N N 18 GLU N H2 sing N N 19 GLU CA C sing N N 20 GLU CA CB sing N N 21 GLU CA HA sing N N 22 GLU C O doub N N 23 GLU C OXT sing N N 24 GLU CB CG sing N N 25 GLU CB HB2 sing N N 26 GLU CB HB3 sing N N 27 GLU CG CD sing N N 28 GLU CG HG2 sing N N 29 GLU CG HG3 sing N N 30 GLU CD OE1 doub N N 31 GLU CD OE2 sing N N 32 GLU OE2 HE2 sing N N 33 GLU OXT HXT sing N N 34 GLY N CA sing N N 35 GLY N H sing N N 36 GLY N H2 sing N N 37 GLY CA C sing N N 38 GLY CA HA2 sing N N 39 GLY CA HA3 sing N N 40 GLY C O doub N N 41 GLY C OXT sing N N 42 GLY OXT HXT sing N N 43 HOH O H1 sing N N 44 HOH O H2 sing N N 45 LEU N CA sing N N 46 LEU N H sing N N 47 LEU N H2 sing N N 48 LEU CA C sing N N 49 LEU CA CB sing N N 50 LEU CA HA sing N N 51 LEU C O doub N N 52 LEU C OXT sing N N 53 LEU CB CG sing N N 54 LEU CB HB2 sing N N 55 LEU CB HB3 sing N N 56 LEU CG CD1 sing N N 57 LEU CG CD2 sing N N 58 LEU CG HG sing N N 59 LEU CD1 HD11 sing N N 60 LEU CD1 HD12 sing N N 61 LEU CD1 HD13 sing N N 62 LEU CD2 HD21 sing N N 63 LEU CD2 HD22 sing N N 64 LEU CD2 HD23 sing N N 65 LEU OXT HXT sing N N 66 LYS N CA sing N N 67 LYS N H sing N N 68 LYS N H2 sing N N 69 LYS CA C sing N N 70 LYS CA CB sing N N 71 LYS CA HA sing N N 72 LYS C O doub N N 73 LYS C OXT sing N N 74 LYS CB CG sing N N 75 LYS CB HB2 sing N N 76 LYS CB HB3 sing N N 77 LYS CG CD sing N N 78 LYS CG HG2 sing N N 79 LYS CG HG3 sing N N 80 LYS CD CE sing N N 81 LYS CD HD2 sing N N 82 LYS CD HD3 sing N N 83 LYS CE NZ sing N N 84 LYS CE HE2 sing N N 85 LYS CE HE3 sing N N 86 LYS NZ HZ1 sing N N 87 LYS NZ HZ2 sing N N 88 LYS NZ HZ3 sing N N 89 LYS OXT HXT sing N N 90 MPD C1 C2 sing N N 91 MPD C1 H11 sing N N 92 MPD C1 H12 sing N N 93 MPD C1 H13 sing N N 94 MPD C2 O2 sing N N 95 MPD C2 CM sing N N 96 MPD C2 C3 sing N N 97 MPD O2 HO2 sing N N 98 MPD CM HM1 sing N N 99 MPD CM HM2 sing N N 100 MPD CM HM3 sing N N 101 MPD C3 C4 sing N N 102 MPD C3 H31 sing N N 103 MPD C3 H32 sing N N 104 MPD C4 O4 sing N N 105 MPD C4 C5 sing N N 106 MPD C4 H4 sing N N 107 MPD O4 HO4 sing N N 108 MPD C5 H51 sing N N 109 MPD C5 H52 sing N N 110 MPD C5 H53 sing N N 111 MRD C1 C2 sing N N 112 MRD C1 H1C1 sing N N 113 MRD C1 H1C2 sing N N 114 MRD C1 H1C3 sing N N 115 MRD C2 O2 sing N N 116 MRD C2 CM sing N N 117 MRD C2 C3 sing N N 118 MRD O2 H2 sing N N 119 MRD CM HMC1 sing N N 120 MRD CM HMC2 sing N N 121 MRD CM HMC3 sing N N 122 MRD C3 C4 sing N N 123 MRD C3 H3C1 sing N N 124 MRD C3 H3C2 sing N N 125 MRD C4 O4 sing N N 126 MRD C4 C5 sing N N 127 MRD C4 H4 sing N N 128 MRD O4 HA sing N N 129 MRD C5 H5C1 sing N N 130 MRD C5 H5C2 sing N N 131 MRD C5 H5C3 sing N N 132 # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details '448 random atoms' # _atom_sites.entry_id 1BYZ _atom_sites.fract_transf_matrix[1][1] 0.047971 _atom_sites.fract_transf_matrix[1][2] 0.027273 _atom_sites.fract_transf_matrix[1][3] 0.013306 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.055015 _atom_sites.fract_transf_matrix[2][3] 0.017373 _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] 0.038926 _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 H N O # loop_