data_8T82
#
_entry.id 8T82
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.382
_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 8T82 pdb_00008t82 10.2210/pdb8t82/pdb
WWPDB D_1000275451 ? ?
#
_pdbx_database_status.status_code REL
_pdbx_database_status.status_code_sf REL
_pdbx_database_status.status_code_mr ?
_pdbx_database_status.entry_id 8T82
_pdbx_database_status.recvd_initial_deposition_date 2023-06-21
_pdbx_database_status.SG_entry N
_pdbx_database_status.deposit_site RCSB
_pdbx_database_status.process_site RCSB
_pdbx_database_status.status_code_cs ?
_pdbx_database_status.status_code_nmr_data ?
_pdbx_database_status.methods_development_category ?
_pdbx_database_status.pdb_format_compatible Y
#
loop_
_audit_author.name
_audit_author.pdbx_ordinal
_audit_author.identifier_ORCID
'Sawaya, M.R.' 1 0000-0003-0874-9043
'Raskatov, J.A.' 2 0000-0002-0082-9113
'Hazari, A.' 3 0009-0005-2071-1322
#
_citation.abstract ?
_citation.abstract_id_CAS ?
_citation.book_id_ISBN ?
_citation.book_publisher ?
_citation.book_publisher_city ?
_citation.book_title ?
_citation.coordinate_linkage ?
_citation.country US
_citation.database_id_Medline ?
_citation.details ?
_citation.id primary
_citation.journal_abbrev J.Am.Chem.Soc.
_citation.journal_id_ASTM JACSAT
_citation.journal_id_CSD ?
_citation.journal_id_ISSN 1520-5126
_citation.journal_full ?
_citation.journal_issue ?
_citation.journal_volume 145
_citation.language ?
_citation.page_first 25917
_citation.page_last 25926
_citation.title
'Racemic Peptides from Amyloid beta and Amylin Form Rippled beta-Sheets Rather Than Pleated beta-Sheets.'
_citation.year 2023
_citation.database_id_CSD ?
_citation.pdbx_database_id_DOI 10.1021/jacs.3c11712
_citation.pdbx_database_id_PubMed 37972334
_citation.pdbx_database_id_patent ?
_citation.unpublished_flag ?
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Hazari, A.' 1 ?
primary 'Sawaya, M.R.' 2 ?
primary 'Sajimon, M.' 3 ?
primary 'Vlahakis, N.' 4 ?
primary 'Rodriguez, J.' 5 ?
primary 'Eisenberg, D.' 6 ?
primary 'Raskatov, J.A.' 7 ?
#
_cell.angle_alpha 90.000
_cell.angle_alpha_esd ?
_cell.angle_beta 98.400
_cell.angle_beta_esd ?
_cell.angle_gamma 90.000
_cell.angle_gamma_esd ?
_cell.entry_id 8T82
_cell.details ?
_cell.formula_units_Z ?
_cell.length_a 9.560
_cell.length_a_esd ?
_cell.length_b 18.570
_cell.length_b_esd ?
_cell.length_c 20.830
_cell.length_c_esd ?
_cell.volume 3658.263
_cell.volume_esd ?
_cell.Z_PDB 4
_cell.reciprocal_angle_alpha ?
_cell.reciprocal_angle_beta ?
_cell.reciprocal_angle_gamma ?
_cell.reciprocal_angle_alpha_esd ?
_cell.reciprocal_angle_beta_esd ?
_cell.reciprocal_angle_gamma_esd ?
_cell.reciprocal_length_a ?
_cell.reciprocal_length_b ?
_cell.reciprocal_length_c ?
_cell.reciprocal_length_a_esd ?
_cell.reciprocal_length_b_esd ?
_cell.reciprocal_length_c_esd ?
_cell.pdbx_unique_axis ?
_cell.pdbx_esd_method ?
#
_symmetry.entry_id 8T82
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 14
_symmetry.space_group_name_Hall '-P 2ybc'
_symmetry.space_group_name_H-M 'P 1 21/c 1'
_symmetry.pdbx_full_space_group_name_H-M ?
#
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 'amyloid beta segment 35-MVGGVV-40, racemic mixture' 560.707 1 ? ? ? ?
2 non-polymer syn 'pentafluoropropanoic acid' 164.031 1 ? ? ? ?
3 water nat water 18.015 1 ? ? ? ?
#
_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 MVGGVV
_entity_poly.pdbx_seq_one_letter_code_can MVGGVV
_entity_poly.pdbx_strand_id A
_entity_poly.pdbx_target_identifier ?
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 MET n
1 2 VAL n
1 3 GLY n
1 4 GLY n
1 5 VAL n
1 6 VAL 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 1
_pdbx_entity_src_syn.pdbx_end_seq_num 6
_pdbx_entity_src_syn.organism_scientific 'Homo sapiens'
_pdbx_entity_src_syn.organism_common_name human
_pdbx_entity_src_syn.ncbi_taxonomy_id 9606
_pdbx_entity_src_syn.details ?
#
_struct_ref.id 1
_struct_ref.db_name PDB
_struct_ref.db_code 8T82
_struct_ref.pdbx_db_accession 8T82
_struct_ref.pdbx_db_isoform ?
_struct_ref.entity_id 1
_struct_ref.pdbx_seq_one_letter_code ?
_struct_ref.pdbx_align_begin 1
#
_struct_ref_seq.align_id 1
_struct_ref_seq.ref_id 1
_struct_ref_seq.pdbx_PDB_id_code 8T82
_struct_ref_seq.pdbx_strand_id A
_struct_ref_seq.seq_align_beg 1
_struct_ref_seq.pdbx_seq_align_beg_ins_code ?
_struct_ref_seq.seq_align_end 6
_struct_ref_seq.pdbx_seq_align_end_ins_code ?
_struct_ref_seq.pdbx_db_accession 8T82
_struct_ref_seq.db_align_beg 35
_struct_ref_seq.pdbx_db_align_beg_ins_code ?
_struct_ref_seq.db_align_end 40
_struct_ref_seq.pdbx_db_align_end_ins_code ?
_struct_ref_seq.pdbx_auth_seq_align_beg 35
_struct_ref_seq.pdbx_auth_seq_align_end 40
#
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
GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067
HOH non-polymer . WATER ? 'H2 O' 18.015
MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211
VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146
YWK non-polymer . 'pentafluoropropanoic acid' ? 'C3 H F5 O2' 164.031
#
_exptl.absorpt_coefficient_mu ?
_exptl.absorpt_correction_T_max ?
_exptl.absorpt_correction_T_min ?
_exptl.absorpt_correction_type ?
_exptl.absorpt_process_details ?
_exptl.entry_id 8T82
_exptl.crystals_number 1
_exptl.details ?
_exptl.method 'X-RAY DIFFRACTION'
_exptl.method_details ?
#
_exptl_crystal.colour ?
_exptl_crystal.density_diffrn ?
_exptl_crystal.density_Matthews 1.63
_exptl_crystal.density_method ?
_exptl_crystal.density_percent_sol 24.59
_exptl_crystal.description needle-shaped
_exptl_crystal.F_000 ?
_exptl_crystal.id 1
_exptl_crystal.preparation ?
_exptl_crystal.size_max ?
_exptl_crystal.size_mid ?
_exptl_crystal.size_min ?
_exptl_crystal.size_rad ?
_exptl_crystal.colour_lustre ?
_exptl_crystal.colour_modifier ?
_exptl_crystal.colour_primary ?
_exptl_crystal.density_meas ?
_exptl_crystal.density_meas_esd ?
_exptl_crystal.density_meas_gt ?
_exptl_crystal.density_meas_lt ?
_exptl_crystal.density_meas_temp ?
_exptl_crystal.density_meas_temp_esd ?
_exptl_crystal.density_meas_temp_gt ?
_exptl_crystal.density_meas_temp_lt ?
_exptl_crystal.pdbx_crystal_image_url ?
_exptl_crystal.pdbx_crystal_image_format ?
_exptl_crystal.pdbx_mosaicity ?
_exptl_crystal.pdbx_mosaicity_esd ?
_exptl_crystal.pdbx_mosaic_method ?
_exptl_crystal.pdbx_mosaic_block_size ?
_exptl_crystal.pdbx_mosaic_block_size_esd ?
#
_exptl_crystal_grow.apparatus ?
_exptl_crystal_grow.atmosphere ?
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.details ?
_exptl_crystal_grow.method 'BATCH MODE'
_exptl_crystal_grow.method_ref ?
_exptl_crystal_grow.pH ?
_exptl_crystal_grow.pressure ?
_exptl_crystal_grow.pressure_esd ?
_exptl_crystal_grow.seeding ?
_exptl_crystal_grow.seeding_ref ?
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.temp_esd ?
_exptl_crystal_grow.time ?
_exptl_crystal_grow.pdbx_details 'pentafluoropropionic acid, water'
_exptl_crystal_grow.pdbx_pH_range ?
_exptl_crystal_grow.temp 298
#
_diffrn.ambient_environment ?
_diffrn.ambient_temp 100
_diffrn.ambient_temp_details ?
_diffrn.ambient_temp_esd ?
_diffrn.crystal_id 1
_diffrn.crystal_support ?
_diffrn.crystal_treatment ?
_diffrn.details ?
_diffrn.id 1
_diffrn.ambient_pressure ?
_diffrn.ambient_pressure_esd ?
_diffrn.ambient_pressure_gt ?
_diffrn.ambient_pressure_lt ?
_diffrn.ambient_temp_gt ?
_diffrn.ambient_temp_lt ?
_diffrn.pdbx_serial_crystal_experiment N
#
_diffrn_detector.details ?
_diffrn_detector.detector PIXEL
_diffrn_detector.diffrn_id 1
_diffrn_detector.type 'DECTRIS EIGER X 16M'
_diffrn_detector.area_resol_mean ?
_diffrn_detector.dtime ?
_diffrn_detector.pdbx_frames_total ?
_diffrn_detector.pdbx_collection_time_total ?
_diffrn_detector.pdbx_collection_date 2023-03-31
_diffrn_detector.pdbx_frequency ?
_diffrn_detector.id ?
_diffrn_detector.number_of_axes ?
#
_diffrn_radiation.collimation ?
_diffrn_radiation.diffrn_id 1
_diffrn_radiation.filter_edge ?
_diffrn_radiation.inhomogeneity ?
_diffrn_radiation.monochromator ?
_diffrn_radiation.polarisn_norm ?
_diffrn_radiation.polarisn_ratio ?
_diffrn_radiation.probe ?
_diffrn_radiation.type ?
_diffrn_radiation.xray_symbol ?
_diffrn_radiation.wavelength_id 1
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
_diffrn_radiation.pdbx_wavelength_list ?
_diffrn_radiation.pdbx_wavelength ?
_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
_diffrn_radiation.pdbx_analyzer ?
_diffrn_radiation.pdbx_scattering_type x-ray
#
_diffrn_radiation_wavelength.id 1
_diffrn_radiation_wavelength.wavelength 0.979180
_diffrn_radiation_wavelength.wt 1.0
#
_diffrn_source.current ?
_diffrn_source.details ?
_diffrn_source.diffrn_id 1
_diffrn_source.power ?
_diffrn_source.size ?
_diffrn_source.source SYNCHROTRON
_diffrn_source.target ?
_diffrn_source.type 'APS BEAMLINE 24-ID-E'
_diffrn_source.voltage ?
_diffrn_source.take-off_angle ?
_diffrn_source.pdbx_wavelength_list 0.979180
_diffrn_source.pdbx_wavelength ?
_diffrn_source.pdbx_synchrotron_beamline 24-ID-E
_diffrn_source.pdbx_synchrotron_site APS
#
_reflns.B_iso_Wilson_estimate 47.80
_reflns.entry_id 8T82
_reflns.data_reduction_details ?
_reflns.data_reduction_method ?
_reflns.d_resolution_high 1.1
_reflns.d_resolution_low 13.79
_reflns.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.number_all ?
_reflns.number_obs 2485
_reflns.observed_criterion ?
_reflns.observed_criterion_F_max ?
_reflns.observed_criterion_F_min ?
_reflns.observed_criterion_I_max ?
_reflns.observed_criterion_I_min ?
_reflns.observed_criterion_sigma_F ?
_reflns.observed_criterion_sigma_I ?
_reflns.percent_possible_obs 82.5
_reflns.R_free_details ?
_reflns.Rmerge_F_all ?
_reflns.Rmerge_F_obs ?
_reflns.Friedel_coverage ?
_reflns.number_gt ?
_reflns.threshold_expression ?
_reflns.pdbx_redundancy 6.5
_reflns.pdbx_netI_over_av_sigmaI ?
_reflns.pdbx_netI_over_sigmaI 10.26
_reflns.pdbx_res_netI_over_av_sigmaI_2 ?
_reflns.pdbx_res_netI_over_sigmaI_2 ?
_reflns.pdbx_chi_squared ?
_reflns.pdbx_scaling_rejects ?
_reflns.pdbx_d_res_high_opt ?
_reflns.pdbx_d_res_low_opt ?
_reflns.pdbx_d_res_opt_method ?
_reflns.phase_calculation_details ?
_reflns.pdbx_Rrim_I_all 0.107
_reflns.pdbx_Rpim_I_all ?
_reflns.pdbx_d_opt ?
_reflns.pdbx_number_measured_all ?
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.pdbx_CC_half 0.991
_reflns.pdbx_CC_star ?
_reflns.pdbx_R_split ?
_reflns.pdbx_Rmerge_I_obs 0.099
_reflns.pdbx_Rmerge_I_all ?
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_CC_split_method ?
_reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ?
_reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ?
_reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ?
_reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ?
_reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ?
_reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ?
_reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ?
_reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ?
_reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ?
_reflns.pdbx_aniso_diffraction_limit_1 ?
_reflns.pdbx_aniso_diffraction_limit_2 ?
_reflns.pdbx_aniso_diffraction_limit_3 ?
_reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ?
_reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ?
_reflns.pdbx_aniso_B_tensor_eigenvalue_1 ?
_reflns.pdbx_aniso_B_tensor_eigenvalue_2 ?
_reflns.pdbx_aniso_B_tensor_eigenvalue_3 ?
_reflns.pdbx_orthogonalization_convention ?
_reflns.pdbx_percent_possible_ellipsoidal ?
_reflns.pdbx_percent_possible_spherical ?
_reflns.pdbx_percent_possible_ellipsoidal_anomalous ?
_reflns.pdbx_percent_possible_spherical_anomalous ?
_reflns.pdbx_redundancy_anomalous ?
_reflns.pdbx_CC_half_anomalous ?
_reflns.pdbx_absDiff_over_sigma_anomalous ?
_reflns.pdbx_percent_possible_anomalous ?
_reflns.pdbx_observed_signal_threshold ?
_reflns.pdbx_signal_type ?
_reflns.pdbx_signal_details ?
_reflns.pdbx_signal_software_id ?
#
loop_
_reflns_shell.d_res_high
_reflns_shell.d_res_low
_reflns_shell.meanI_over_sigI_all
_reflns_shell.meanI_over_sigI_obs
_reflns_shell.number_measured_all
_reflns_shell.number_measured_obs
_reflns_shell.number_possible
_reflns_shell.number_unique_all
_reflns_shell.number_unique_obs
_reflns_shell.percent_possible_obs
_reflns_shell.Rmerge_F_all
_reflns_shell.Rmerge_F_obs
_reflns_shell.meanI_over_sigI_gt
_reflns_shell.meanI_over_uI_all
_reflns_shell.meanI_over_uI_gt
_reflns_shell.number_measured_gt
_reflns_shell.number_unique_gt
_reflns_shell.percent_possible_gt
_reflns_shell.Rmerge_F_gt
_reflns_shell.Rmerge_I_gt
_reflns_shell.pdbx_redundancy
_reflns_shell.pdbx_chi_squared
_reflns_shell.pdbx_netI_over_sigmaI_all
_reflns_shell.pdbx_netI_over_sigmaI_obs
_reflns_shell.pdbx_Rrim_I_all
_reflns_shell.pdbx_Rpim_I_all
_reflns_shell.pdbx_rejects
_reflns_shell.pdbx_ordinal
_reflns_shell.pdbx_diffrn_id
_reflns_shell.pdbx_CC_half
_reflns_shell.pdbx_CC_star
_reflns_shell.pdbx_R_split
_reflns_shell.percent_possible_all
_reflns_shell.Rmerge_I_all
_reflns_shell.Rmerge_I_obs
_reflns_shell.pdbx_Rsym_value
_reflns_shell.pdbx_percent_possible_ellipsoidal
_reflns_shell.pdbx_percent_possible_spherical
_reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous
_reflns_shell.pdbx_percent_possible_spherical_anomalous
_reflns_shell.pdbx_redundancy_anomalous
_reflns_shell.pdbx_CC_half_anomalous
_reflns_shell.pdbx_absDiff_over_sigma_anomalous
_reflns_shell.pdbx_percent_possible_anomalous
1.10 1.16 ? ? ? ? ? ? 155 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.258 ? ? 1 1 0.977 ? ? ? ? 0.234 ? ? ? ? ? ? ? ? ?
1.16 1.23 ? ? ? ? ? ? 298 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.218 ? ? 2 1 0.978 ? ? ? ? 0.2 ? ? ? ? ? ? ? ? ?
1.23 1.31 ? ? ? ? ? ? 333 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.183 ? ? 3 1 0.986 ? ? ? ? 0.168 ? ? ? ? ? ? ? ? ?
1.31 1.42 ? ? ? ? ? ? 354 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.163 ? ? 4 1 0.988 ? ? ? ? 0.15 ? ? ? ? ? ? ? ? ?
1.42 1.56 ? ? ? ? ? ? 322 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.136 ? ? 5 1 0.99 ? ? ? ? 0.126 ? ? ? ? ? ? ? ? ?
1.56 1.74 ? ? ? ? ? ? 281 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.121 ? ? 6 1 0.994 ? ? ? ? 0.112 ? ? ? ? ? ? ? ? ?
1.74 2.01 ? ? ? ? ? ? 246 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.103 ? ? 7 1 0.995 ? ? ? ? 0.095 ? ? ? ? ? ? ? ? ?
2.01 2.46 ? ? ? ? ? ? 221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.107 ? ? 8 1 0.996 ? ? ? ? 0.099 ? ? ? ? ? ? ? ? ?
2.46 3.48 ? ? ? ? ? ? 177 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.1 ? ? 9 1 0.995 ? ? ? ? 0.092 ? ? ? ? ? ? ? ? ?
3.48 13.79 ? ? ? ? ? ? 98 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 0.085 ? ? 10 1 0.988 ? ? ? ? 0.079 ? ? ? ? ? ? ? ? ?
#
_refine.aniso_B[1][1] ?
_refine.aniso_B[1][2] ?
_refine.aniso_B[1][3] ?
_refine.aniso_B[2][2] ?
_refine.aniso_B[2][3] ?
_refine.aniso_B[3][3] ?
_refine.B_iso_max ?
_refine.B_iso_mean 6.57
_refine.B_iso_min ?
_refine.correlation_coeff_Fo_to_Fc ?
_refine.correlation_coeff_Fo_to_Fc_free ?
_refine.details ?
_refine.diff_density_max ?
_refine.diff_density_max_esd ?
_refine.diff_density_min ?
_refine.diff_density_min_esd ?
_refine.diff_density_rms ?
_refine.diff_density_rms_esd ?
_refine.entry_id 8T82
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.ls_abs_structure_details ?
_refine.ls_abs_structure_Flack ?
_refine.ls_abs_structure_Flack_esd ?
_refine.ls_abs_structure_Rogers ?
_refine.ls_abs_structure_Rogers_esd ?
_refine.ls_d_res_high 1.10
_refine.ls_d_res_low 13.79
_refine.ls_extinction_coef ?
_refine.ls_extinction_coef_esd ?
_refine.ls_extinction_expression ?
_refine.ls_extinction_method ?
_refine.ls_goodness_of_fit_all ?
_refine.ls_goodness_of_fit_all_esd ?
_refine.ls_goodness_of_fit_obs ?
_refine.ls_goodness_of_fit_obs_esd ?
_refine.ls_hydrogen_treatment ?
_refine.ls_matrix_type ?
_refine.ls_number_constraints ?
_refine.ls_number_parameters ?
_refine.ls_number_reflns_all ?
_refine.ls_number_reflns_obs 2384
_refine.ls_number_reflns_R_free 238
_refine.ls_number_reflns_R_work 2146
_refine.ls_number_restraints ?
_refine.ls_percent_reflns_obs 83.12
_refine.ls_percent_reflns_R_free 9.98
_refine.ls_R_factor_all ?
_refine.ls_R_factor_obs 0.1548
_refine.ls_R_factor_R_free 0.1771
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_R_factor_R_work 0.1523
_refine.ls_R_Fsqd_factor_obs ?
_refine.ls_R_I_factor_obs ?
_refine.ls_redundancy_reflns_all ?
_refine.ls_redundancy_reflns_obs ?
_refine.ls_restrained_S_all ?
_refine.ls_restrained_S_obs ?
_refine.ls_shift_over_esd_max ?
_refine.ls_shift_over_esd_mean ?
_refine.ls_structure_factor_coef ?
_refine.ls_weighting_details ?
_refine.ls_weighting_scheme ?
_refine.ls_wR_factor_all ?
_refine.ls_wR_factor_obs ?
_refine.ls_wR_factor_R_free ?
_refine.ls_wR_factor_R_work ?
_refine.occupancy_max ?
_refine.occupancy_min ?
_refine.solvent_model_details 'FLAT BULK SOLVENT MODEL'
_refine.solvent_model_param_bsol ?
_refine.solvent_model_param_ksol ?
_refine.pdbx_R_complete ?
_refine.ls_R_factor_gt ?
_refine.ls_goodness_of_fit_gt ?
_refine.ls_goodness_of_fit_ref ?
_refine.ls_shift_over_su_max ?
_refine.ls_shift_over_su_max_lt ?
_refine.ls_shift_over_su_mean ?
_refine.ls_shift_over_su_mean_lt ?
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F 1.35
_refine.pdbx_ls_sigma_Fsqd ?
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_ls_cross_valid_method 'FREE R-VALUE'
_refine.pdbx_method_to_determine_struct 'AB INITIO PHASING'
_refine.pdbx_starting_model ?
_refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2'
_refine.pdbx_R_Free_selection_details ?
_refine.pdbx_stereochem_target_val_spec_case ?
_refine.pdbx_overall_ESU_R ?
_refine.pdbx_overall_ESU_R_Free ?
_refine.pdbx_solvent_vdw_probe_radii 1.1000
_refine.pdbx_solvent_ion_probe_radii ?
_refine.pdbx_solvent_shrinkage_radii 0.9000
_refine.pdbx_real_space_R ?
_refine.pdbx_density_correlation ?
_refine.pdbx_pd_number_of_powder_patterns ?
_refine.pdbx_pd_number_of_points ?
_refine.pdbx_pd_meas_number_of_points ?
_refine.pdbx_pd_proc_ls_prof_R_factor ?
_refine.pdbx_pd_proc_ls_prof_wR_factor ?
_refine.pdbx_pd_Marquardt_correlation_coeff ?
_refine.pdbx_pd_Fsqrd_R_factor ?
_refine.pdbx_pd_ls_matrix_band_width ?
_refine.pdbx_overall_phase_error 15.0567
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI ?
_refine.pdbx_overall_SU_R_free_Blow_DPI ?
_refine.pdbx_overall_SU_R_Blow_DPI ?
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.pdbx_diffrn_id 1
_refine.overall_SU_B ?
_refine.overall_SU_ML 0.0483
_refine.overall_SU_R_Cruickshank_DPI ?
_refine.overall_SU_R_free ?
_refine.overall_FOM_free_R_set ?
_refine.overall_FOM_work_R_set ?
_refine.pdbx_average_fsc_overall ?
_refine.pdbx_average_fsc_work ?
_refine.pdbx_average_fsc_free ?
#
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.cycle_id LAST
_refine_hist.details ?
_refine_hist.d_res_high 1.10
_refine_hist.d_res_low 13.79
_refine_hist.number_atoms_solvent 1
_refine_hist.number_atoms_total 49
_refine_hist.number_reflns_all ?
_refine_hist.number_reflns_obs ?
_refine_hist.number_reflns_R_free ?
_refine_hist.number_reflns_R_work ?
_refine_hist.R_factor_all ?
_refine_hist.R_factor_obs ?
_refine_hist.R_factor_R_free ?
_refine_hist.R_factor_R_work ?
_refine_hist.pdbx_number_residues_total ?
_refine_hist.pdbx_B_iso_mean_ligand ?
_refine_hist.pdbx_B_iso_mean_solvent ?
_refine_hist.pdbx_number_atoms_protein 38
_refine_hist.pdbx_number_atoms_nucleic_acid 0
_refine_hist.pdbx_number_atoms_ligand 10
_refine_hist.pdbx_number_atoms_lipid ?
_refine_hist.pdbx_number_atoms_carb ?
_refine_hist.pdbx_pseudo_atom_details ?
#
loop_
_refine_ls_restr.pdbx_refine_id
_refine_ls_restr.criterion
_refine_ls_restr.dev_ideal
_refine_ls_restr.dev_ideal_target
_refine_ls_restr.number
_refine_ls_restr.rejects
_refine_ls_restr.type
_refine_ls_restr.weight
_refine_ls_restr.pdbx_restraint_function
'X-RAY DIFFRACTION' ? 0.0069 ? 46 ? f_bond_d ? ?
'X-RAY DIFFRACTION' ? 1.3596 ? 64 ? f_angle_d ? ?
'X-RAY DIFFRACTION' ? 0.0953 ? 7 ? f_chiral_restr ? ?
'X-RAY DIFFRACTION' ? 0.0056 ? 7 ? f_plane_restr ? ?
'X-RAY DIFFRACTION' ? 14.2853 ? 14 ? f_dihedral_angle_d ? ?
#
loop_
_refine_ls_shell.pdbx_refine_id
_refine_ls_shell.d_res_high
_refine_ls_shell.d_res_low
_refine_ls_shell.number_reflns_all
_refine_ls_shell.number_reflns_obs
_refine_ls_shell.number_reflns_R_free
_refine_ls_shell.number_reflns_R_work
_refine_ls_shell.percent_reflns_obs
_refine_ls_shell.percent_reflns_R_free
_refine_ls_shell.R_factor_all
_refine_ls_shell.R_factor_obs
_refine_ls_shell.R_factor_R_free_error
_refine_ls_shell.R_factor_R_work
_refine_ls_shell.redundancy_reflns_all
_refine_ls_shell.redundancy_reflns_obs
_refine_ls_shell.wR_factor_all
_refine_ls_shell.wR_factor_obs
_refine_ls_shell.wR_factor_R_free
_refine_ls_shell.wR_factor_R_work
_refine_ls_shell.pdbx_R_complete
_refine_ls_shell.pdbx_total_number_of_bins_used
_refine_ls_shell.pdbx_phase_error
_refine_ls_shell.pdbx_fsc_work
_refine_ls_shell.pdbx_fsc_free
_refine_ls_shell.R_factor_R_free
'X-RAY DIFFRACTION' 1.10 1.39 . . 101 913 70.37 . . . . 0.1551 . . . . . . . . . . . 0.1884
'X-RAY DIFFRACTION' 1.39 13.79 . . 137 1233 96.01 . . . . 0.1515 . . . . . . . . . . . 0.1740
#
_struct.entry_id 8T82
_struct.title
'Racemic mixture of amyloid beta segment 35-MVGGVV-40 forms heterochiral rippled beta-sheet, includes pentafluoropropionic acid'
_struct.pdbx_model_details ?
_struct.pdbx_formula_weight ?
_struct.pdbx_formula_weight_method ?
_struct.pdbx_model_type_details ?
_struct.pdbx_CASP_flag N
#
_struct_keywords.entry_id 8T82
_struct_keywords.text 'Rippled beta sheet, amyloid fibril, PROTEIN FIBRIL'
_struct_keywords.pdbx_keywords 'PROTEIN FIBRIL'
#
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 ?
#
_atom_sites.entry_id 8T82
_atom_sites.Cartn_transf_matrix[1][1] ?
_atom_sites.Cartn_transf_matrix[1][2] ?
_atom_sites.Cartn_transf_matrix[1][3] ?
_atom_sites.Cartn_transf_matrix[2][1] ?
_atom_sites.Cartn_transf_matrix[2][2] ?
_atom_sites.Cartn_transf_matrix[2][3] ?
_atom_sites.Cartn_transf_matrix[3][1] ?
_atom_sites.Cartn_transf_matrix[3][2] ?
_atom_sites.Cartn_transf_matrix[3][3] ?
_atom_sites.Cartn_transf_vector[1] ?
_atom_sites.Cartn_transf_vector[2] ?
_atom_sites.Cartn_transf_vector[3] ?
_atom_sites.fract_transf_matrix[1][1] 0.104603
_atom_sites.fract_transf_matrix[1][2] 0.000000
_atom_sites.fract_transf_matrix[1][3] 0.015446
_atom_sites.fract_transf_matrix[2][1] 0.000000
_atom_sites.fract_transf_matrix[2][2] 0.053850
_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] 0.048528
_atom_sites.fract_transf_vector[1] 0.00000
_atom_sites.fract_transf_vector[2] 0.00000
_atom_sites.fract_transf_vector[3] 0.00000
_atom_sites.solution_primary ?
_atom_sites.solution_secondary ?
_atom_sites.solution_hydrogens ?
_atom_sites.special_details ?
#
loop_
_atom_type.symbol
_atom_type.scat_dispersion_real
_atom_type.scat_dispersion_imag
_atom_type.scat_Cromer_Mann_a1
_atom_type.scat_Cromer_Mann_a2
_atom_type.scat_Cromer_Mann_a3
_atom_type.scat_Cromer_Mann_a4
_atom_type.scat_Cromer_Mann_b1
_atom_type.scat_Cromer_Mann_b2
_atom_type.scat_Cromer_Mann_b3
_atom_type.scat_Cromer_Mann_b4
_atom_type.scat_Cromer_Mann_c
_atom_type.scat_source
_atom_type.scat_dispersion_source
C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
F ? ? 4.90428 4.07044 ? ? 12.99538 1.63651 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
O1- ? ? 4.31557 2.79156 1.86576 ? 8.03600 32.36470 0.29580 ? 0.0
;3-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
S ? ? 9.55732 6.39887 ? ? 1.23737 29.19336 ? ? 0.0
;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
;
?
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_alt_id
_atom_site.label_comp_id
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.label_seq_id
_atom_site.pdbx_PDB_ins_code
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_seq_id
_atom_site.auth_comp_id
_atom_site.auth_asym_id
_atom_site.auth_atom_id
_atom_site.pdbx_PDB_model_num
ATOM 1 N N . MET A 1 1 ? -0.32400 14.74800 3.12100 1.000 5.70498 ? 35 MET A N 1
ATOM 2 C CA . MET A 1 1 ? 0.51400 14.38200 4.29400 1.000 5.66814 ? 35 MET A CA 1
ATOM 3 C C . MET A 1 1 ? 0.02900 13.02000 4.79100 1.000 4.85488 ? 35 MET A C 1
ATOM 4 O O . MET A 1 1 ? -1.16600 12.71700 4.73800 1.000 5.73130 ? 35 MET A O 1
ATOM 5 C CB . MET A 1 1 ? 0.38300 15.42100 5.41900 1.000 6.27347 ? 35 MET A CB 1
ATOM 6 C CG . MET A 1 1 ? 0.92000 16.82900 5.09900 1.000 7.25254 ? 35 MET A CG 1
ATOM 7 S SD . MET A 1 1 ? 2.70500 16.85500 4.86900 1.000 7.68943 ? 35 MET A SD 1
ATOM 8 C CE . MET A 1 1 ? 3.25400 16.41200 6.50900 1.000 8.21318 ? 35 MET A CE 1
ATOM 9 H H1 . MET A 1 1 ? 0.00400 15.48100 2.73800 1.000 6.86903 ? 35 MET A H1 1
ATOM 10 H H2 . MET A 1 1 ? -0.32000 14.08000 2.53300 1.000 6.86903 ? 35 MET A H2 1
ATOM 11 H H3 . MET A 1 1 ? -1.15900 14.90200 3.38900 1.000 6.86903 ? 35 MET A H3 1
ATOM 12 H HA . MET A 1 1 ? 1.45200 14.36100 4.04900 1.000 6.81903 ? 35 MET A HA 1
ATOM 13 H HB2 . MET A 1 1 ? -0.55800 15.51600 5.63700 1.000 7.54903 ? 35 MET A HB2 1
ATOM 14 H HB3 . MET A 1 1 ? 0.87100 15.09600 6.19100 1.000 7.54903 ? 35 MET A HB3 1
ATOM 15 H HG2 . MET A 1 1 ? 0.50700 17.14700 4.28100 1.000 8.71903 ? 35 MET A HG2 1
ATOM 16 H HG3 . MET A 1 1 ? 0.70300 17.42400 5.83300 1.000 8.71903 ? 35 MET A HG3 1
ATOM 17 H HE1 . MET A 1 1 ? 4.02800 16.94900 6.73800 1.000 9.86903 ? 35 MET A HE1 1
ATOM 18 H HE2 . MET A 1 1 ? 2.53600 16.57900 7.13900 1.000 9.86903 ? 35 MET A HE2 1
ATOM 19 H HE3 . MET A 1 1 ? 3.49000 15.47100 6.51900 1.000 9.86903 ? 35 MET A HE3 1
ATOM 20 N N . VAL A 1 2 ? 0.94800 12.22400 5.30700 1.000 4.66012 ? 36 VAL A N 1
ATOM 21 C CA . VAL A 1 2 ? 0.65900 10.92900 5.91000 1.000 4.77593 ? 36 VAL A CA 1
ATOM 22 C C . VAL A 1 2 ? 0.89400 11.07600 7.40700 1.000 4.48905 ? 36 VAL A C 1
ATOM 23 O O . VAL A 1 2 ? 2.02700 11.27900 7.85500 1.000 4.91805 ? 36 VAL A O 1
ATOM 24 C CB . VAL A 1 2 ? 1.53600 9.83300 5.29500 1.000 5.23651 ? 36 VAL A CB 1
ATOM 25 C CG1 . VAL A 1 2 ? 1.34500 8.51700 6.03200 1.000 5.51549 ? 36 VAL A CG1 1
ATOM 26 C CG2 . VAL A 1 2 ? 1.21700 9.69800 3.82200 1.000 6.09187 ? 36 VAL A CG2 1
ATOM 27 H H . VAL A 1 2 ? 1.78600 12.41900 5.32200 1.000 5.60903 ? 36 VAL A H 1
ATOM 28 H HA . VAL A 1 2 ? -0.27100 10.68900 5.77500 1.000 5.74903 ? 36 VAL A HA 1
ATOM 29 H HB . VAL A 1 2 ? 2.47200 10.07300 5.38100 1.000 6.30903 ? 36 VAL A HB 1
ATOM 30 H HG11 . VAL A 1 2 ? 1.92000 7.84600 5.63400 1.000 6.63903 ? 36 VAL A HG11 1
ATOM 31 H HG12 . VAL A 1 2 ? 1.57800 8.64200 6.96600 1.000 6.63903 ? 36 VAL A HG12 1
ATOM 32 H HG13 . VAL A 1 2 ? 0.41700 8.24500 5.95700 1.000 6.63903 ? 36 VAL A HG13 1
ATOM 33 H HG21 . VAL A 1 2 ? 1.75600 8.98400 3.44700 1.000 7.32903 ? 36 VAL A HG21 1
ATOM 34 H HG22 . VAL A 1 2 ? 0.27500 9.49000 3.72100 1.000 7.32903 ? 36 VAL A HG22 1
ATOM 35 H HG23 . VAL A 1 2 ? 1.42100 10.53500 3.37700 1.000 7.32903 ? 36 VAL A HG23 1
ATOM 36 N N . GLY A 1 3 ? -0.17500 11.01400 8.18800 1.000 4.11795 ? 37 GLY A N 1
ATOM 37 C CA . GLY A 1 3 ? -0.03100 11.18300 9.60800 1.000 4.53379 ? 37 GLY A CA 1
ATOM 38 C C . GLY A 1 3 ? 0.71800 10.03800 10.25300 1.000 4.71013 ? 37 GLY A C 1
ATOM 39 O O . GLY A 1 3 ? 0.71200 8.91000 9.77900 1.000 5.32862 ? 37 GLY A O 1
ATOM 40 H H . GLY A 1 3 ? -0.97900 10.87700 7.91700 1.000 4.95903 ? 37 GLY A H 1
ATOM 41 H HA2 . GLY A 1 3 ? 0.45400 12.00500 9.78600 1.000 5.45903 ? 37 GLY A HA2 1
ATOM 42 H HA3 . GLY A 1 3 ? -0.91000 11.24100 10.01500 1.000 5.45903 ? 37 GLY A HA3 1
ATOM 43 N N . GLY A 1 4 ? 1.36600 10.34300 11.36500 1.000 4.76277 ? 38 GLY A N 1
ATOM 44 C CA . GLY A 1 4 ? 2.05700 9.32400 12.12200 1.000 4.73118 ? 38 GLY A CA 1
ATOM 45 C C . GLY A 1 4 ? 1.10300 8.34400 12.77600 1.000 4.52590 ? 38 GLY A C 1
ATOM 46 O O . GLY A 1 4 ? -0.10300 8.55400 12.87100 1.000 4.79698 ? 38 GLY A O 1
ATOM 47 H H . GLY A 1 4 ? 1.41900 11.13300 11.70000 1.000 5.72903 ? 38 GLY A H 1
ATOM 48 H HA2 . GLY A 1 4 ? 2.64600 8.83000 11.53100 1.000 5.69903 ? 38 GLY A HA2 1
ATOM 49 H HA3 . GLY A 1 4 ? 2.58700 9.74500 12.81700 1.000 5.69903 ? 38 GLY A HA3 1
ATOM 50 N N . VAL A 1 5 ? 1.69700 7.27600 13.28300 1.000 4.23376 ? 39 VAL A N 1
ATOM 51 C CA . VAL A 1 5 ? 0.96700 6.17400 13.90000 1.000 4.79172 ? 39 VAL A CA 1
ATOM 52 C C . VAL A 1 5 ? 1.68100 5.83300 15.20000 1.000 5.12334 ? 39 VAL A C 1
ATOM 53 O O . VAL A 1 5 ? 2.89200 5.56800 15.18700 1.000 5.31810 ? 39 VAL A O 1
ATOM 54 C CB . VAL A 1 5 ? 0.90900 4.94600 12.96900 1.000 5.81289 ? 39 VAL A CB 1
ATOM 55 C CG1 . VAL A 1 5 ? 0.09900 3.83300 13.61800 1.000 6.47876 ? 39 VAL A CG1 1
ATOM 56 C CG2 . VAL A 1 5 ? 0.31000 5.33500 11.61200 1.000 6.28927 ? 39 VAL A CG2 1
ATOM 57 H H . VAL A 1 5 ? 2.54900 7.16000 13.28300 1.000 5.09903 ? 39 VAL A H 1
ATOM 58 H HA . VAL A 1 5 ? 0.05900 6.44400 14.10700 1.000 5.76903 ? 39 VAL A HA 1
ATOM 59 H HB . VAL A 1 5 ? 1.80800 4.61600 12.81700 1.000 6.99903 ? 39 VAL A HB 1
ATOM 60 H HG11 . VAL A 1 5 ? 0.05400 3.07900 13.01000 1.000 7.78903 ? 39 VAL A HG11 1
ATOM 61 H HG12 . VAL A 1 5 ? 0.53300 3.56700 14.44400 1.000 7.78903 ? 39 VAL A HG12 1
ATOM 62 H HG13 . VAL A 1 5 ? -0.79500 4.16100 13.80500 1.000 7.78903 ? 39 VAL A HG13 1
ATOM 63 H HG21 . VAL A 1 5 ? 0.26700 4.54700 11.04800 1.000 7.56903 ? 39 VAL A HG21 1
ATOM 64 H HG22 . VAL A 1 5 ? -0.58100 5.69200 11.75000 1.000 7.56903 ? 39 VAL A HG22 1
ATOM 65 H HG23 . VAL A 1 5 ? 0.87500 6.00700 11.19900 1.000 7.56903 ? 39 VAL A HG23 1
ATOM 66 N N . VAL A 1 6 ? 0.94500 5.85900 16.30800 1.000 5.77605 ? 40 VAL A N 1
ATOM 67 C CA . VAL A 1 6 ? 1.51800 5.57800 17.61000 1.000 5.94975 ? 40 VAL A CA 1
ATOM 68 C C . VAL A 1 6 ? 1.07500 4.22600 18.13400 1.000 6.63141 ? 40 VAL A C 1
ATOM 69 O O . VAL A 1 6 ? 0.11900 3.66100 17.71000 1.000 6.83407 ? 40 VAL A O 1
ATOM 70 C CB . VAL A 1 6 ? 1.19200 6.68000 18.61900 1.000 7.22359 ? 40 VAL A CB 1
ATOM 71 C CG1 . VAL A 1 6 ? 1.77500 7.99900 18.15800 1.000 8.68166 ? 40 VAL A CG1 1
ATOM 72 C CG2 . VAL A 1 6 ? -0.30200 6.81100 18.82400 1.000 7.18148 ? 40 VAL A CG2 1
ATOM 73 O OXT . VAL A 1 6 ? 1.80500 3.70000 19.09900 1.000 7.44730 ? 40 VAL A OXT 1
ATOM 74 H H . VAL A 1 6 ? 0.10400 6.03900 16.32800 1.000 6.94903 ? 40 VAL A H 1
ATOM 75 H HA . VAL A 1 6 ? 2.48100 5.54600 17.50100 1.000 7.15903 ? 40 VAL A HA 1
ATOM 76 H HB . VAL A 1 6 ? 1.58900 6.44200 19.47100 1.000 8.68903 ? 40 VAL A HB 1
ATOM 77 H HG11 . VAL A 1 6 ? 1.57300 8.68100 18.81800 1.000 10.43903 ? 40 VAL A HG11 1
ATOM 78 H HG12 . VAL A 1 6 ? 2.73500 7.90400 18.06300 1.000 10.43903 ? 40 VAL A HG12 1
ATOM 79 H HG13 . VAL A 1 6 ? 1.38000 8.23800 17.30500 1.000 10.43903 ? 40 VAL A HG13 1
ATOM 80 H HG21 . VAL A 1 6 ? -0.47100 7.51400 19.47100 1.000 8.63903 ? 40 VAL A HG21 1
ATOM 81 H HG22 . VAL A 1 6 ? -0.71800 7.03400 17.97700 1.000 8.63903 ? 40 VAL A HG22 1
ATOM 82 H HG23 . VAL A 1 6 ? -0.65100 5.96800 19.15300 1.000 8.63903 ? 40 VAL A HG23 1
ATOM 83 H HXT . VAL A 1 6 ? 2.71800 3.79000 18.85800 1.000 8.95903 ? 40 VAL A HXT 1
HETATM 84 C C01 . YWK B 2 . ? 1.90200 12.48800 -0.52700 1.000 9.38437 ? 101 YWK A C01 1
HETATM 85 C C02 . YWK B 2 . ? 1.37100 11.06300 -0.67900 1.000 10.63452 ? 101 YWK A C02 1
HETATM 86 C C03 . YWK B 2 . ? 1.50200 13.15300 0.78200 1.000 8.34214 ? 101 YWK A C03 1
HETATM 87 F F01 . YWK B 2 . ? 3.26300 12.47500 -0.65700 1.000 10.08446 ? 101 YWK A F01 1
HETATM 88 F F02 . YWK B 2 . ? 1.40800 13.22300 -1.56200 1.000 9.11066 ? 101 YWK A F02 1
HETATM 89 F F03 . YWK B 2 . ? 0.01600 11.02800 -0.79600 1.000 10.72138 ? 101 YWK A F03 1
HETATM 90 F F04 . YWK B 2 . ? 1.92400 10.51100 -1.78700 1.000 11.20564 ? 101 YWK A F04 1
HETATM 91 F F05 . YWK B 2 . ? 1.75000 10.29300 0.36600 1.000 11.53200 ? 101 YWK A F05 1
HETATM 92 O O01 . YWK B 2 . ? 2.33300 13.91200 1.37500 1.000 8.94485 -1 101 YWK A O01 1
HETATM 93 O O02 . YWK B 2 . ? 0.32800 12.95300 1.19000 1.000 8.16581 ? 101 YWK A O02 1
HETATM 94 O O . HOH C 3 . ? -1.30300 7.86400 8.33700 1.000 5.45759 ? 201 HOH A O 1
#
loop_
_atom_site_anisotrop.id
_atom_site_anisotrop.type_symbol
_atom_site_anisotrop.pdbx_label_atom_id
_atom_site_anisotrop.pdbx_label_alt_id
_atom_site_anisotrop.pdbx_label_comp_id
_atom_site_anisotrop.pdbx_label_asym_id
_atom_site_anisotrop.pdbx_label_seq_id
_atom_site_anisotrop.pdbx_PDB_ins_code
_atom_site_anisotrop.U[1][1]
_atom_site_anisotrop.U[2][2]
_atom_site_anisotrop.U[3][3]
_atom_site_anisotrop.U[1][2]
_atom_site_anisotrop.U[1][3]
_atom_site_anisotrop.U[2][3]
_atom_site_anisotrop.pdbx_auth_seq_id
_atom_site_anisotrop.pdbx_auth_comp_id
_atom_site_anisotrop.pdbx_auth_asym_id
_atom_site_anisotrop.pdbx_auth_atom_id
1 N N . MET A 1 ? 0.07905 0.07755 0.06015 0.00420 -0.00860 0.01190 35 MET A N
2 C CA . MET A 1 ? 0.07115 0.07795 0.06625 -0.00200 -0.00580 0.01410 35 MET A CA
3 C C . MET A 1 ? 0.04885 0.07375 0.06185 -0.01000 -0.00050 0.01500 35 MET A C
4 O O . MET A 1 ? 0.05855 0.08455 0.07465 0.00060 -0.00020 0.01830 35 MET A O
5 C CB . MET A 1 ? 0.08525 0.07655 0.07655 -0.01720 -0.01110 0.00750 35 MET A CB
6 C CG . MET A 1 ? 0.09675 0.09045 0.08835 -0.01190 -0.00010 0.00590 35 MET A CG
7 S SD . MET A 1 ? 0.08745 0.10605 0.09865 -0.01460 -0.00560 0.00990 35 MET A SD
8 C CE . MET A 1 ? 0.09955 0.10635 0.10615 -0.01360 -0.01860 0.00930 35 MET A CE
20 N N . VAL A 2 ? 0.04805 0.06855 0.06045 -0.00710 -0.00900 0.00910 36 VAL A N
21 C CA . VAL A 2 ? 0.05675 0.07235 0.05235 0.00200 -0.00350 0.00950 36 VAL A CA
22 C C . VAL A 2 ? 0.04945 0.06845 0.05265 0.00340 0.00030 0.00920 36 VAL A C
23 O O . VAL A 2 ? 0.05545 0.07495 0.05645 -0.00570 -0.00290 0.00850 36 VAL A O
24 C CB . VAL A 2 ? 0.06975 0.07665 0.05255 0.00500 -0.00700 -0.00170 36 VAL A CB
25 C CG1 . VAL A 2 ? 0.06865 0.08135 0.05955 -0.00270 -0.00120 -0.00830 36 VAL A CG1
26 C CG2 . VAL A 2 ? 0.09445 0.08195 0.05505 0.00320 -0.00480 -0.00640 36 VAL A CG2
36 N N . GLY A 3 ? 0.03225 0.06975 0.05445 0.00860 -0.00460 0.00850 37 GLY A N
37 C CA . GLY A 3 ? 0.04855 0.06875 0.05495 -0.00120 0.00210 0.00640 37 GLY A CA
38 C C . GLY A 3 ? 0.04815 0.07495 0.05585 -0.01510 -0.00260 -0.00030 37 GLY A C
39 O O . GLY A 3 ? 0.07475 0.07425 0.05345 -0.01050 -0.01180 -0.00230 37 GLY A O
43 N N . GLY A 4 ? 0.04805 0.07265 0.06025 -0.00730 -0.00360 0.00620 38 GLY A N
44 C CA . GLY A 4 ? 0.04825 0.07315 0.05835 -0.00530 -0.00510 0.00840 38 GLY A CA
45 C C . GLY A 4 ? 0.04505 0.06875 0.05815 0.00590 -0.00340 0.00880 38 GLY A C
46 O O . GLY A 4 ? 0.05775 0.06185 0.06265 0.01220 -0.00120 0.01430 38 GLY A O
50 N N . VAL A 5 ? 0.03465 0.06465 0.06155 0.00100 -0.00400 0.00800 39 VAL A N
51 C CA . VAL A 5 ? 0.04455 0.07045 0.06705 -0.00830 -0.01080 0.00840 39 VAL A CA
52 C C . VAL A 5 ? 0.05015 0.07835 0.06615 -0.00210 -0.00100 0.01400 39 VAL A C
53 O O . VAL A 5 ? 0.04735 0.08485 0.06985 0.00140 -0.00580 0.01370 39 VAL A O
54 C CB . VAL A 5 ? 0.07845 0.06465 0.07775 -0.00640 -0.00430 0.00520 39 VAL A CB
55 C CG1 . VAL A 5 ? 0.09665 0.06465 0.08485 -0.00520 0.00220 -0.00370 39 VAL A CG1
56 C CG2 . VAL A 5 ? 0.08645 0.07175 0.08075 -0.00470 -0.00600 0.00080 39 VAL A CG2
66 N N . VAL A 6 ? 0.06645 0.08635 0.06665 0.00790 -0.00870 0.01510 40 VAL A N
67 C CA . VAL A 6 ? 0.06595 0.08785 0.07225 -0.00120 -0.01360 0.01150 40 VAL A CA
68 C C . VAL A 6 ? 0.08945 0.08545 0.07705 0.00340 -0.02370 0.00850 40 VAL A C
69 O O . VAL A 6 ? 0.09815 0.08075 0.08075 0.01000 -0.02490 0.00100 40 VAL A O
70 C CB . VAL A 6 ? 0.09925 0.09495 0.08025 -0.00430 -0.00660 0.00660 40 VAL A CB
71 C CG1 . VAL A 6 ? 0.13605 0.10125 0.09255 -0.02160 -0.00640 0.00810 40 VAL A CG1
72 C CG2 . VAL A 6 ? 0.09625 0.09905 0.07755 0.00820 0.00540 0.00170 40 VAL A CG2
73 O OXT . VAL A 6 ? 0.10635 0.09435 0.08225 0.01070 -0.03260 0.01020 40 VAL A OXT
84 C C01 . YWK B . ? 0.12415 0.14775 0.08465 0.02180 -0.00940 -0.01070 101 YWK A C01
85 C C02 . YWK B . ? 0.17335 0.14365 0.08705 0.02010 -0.01010 -0.01920 101 YWK A C02
86 C C03 . YWK B . ? 0.10435 0.13215 0.08045 0.01300 -0.01030 -0.01300 101 YWK A C03
87 F F01 . YWK B . ? 0.11385 0.17055 0.09875 0.02380 0.01050 -0.01350 101 YWK A F01
88 F F02 . YWK B . ? 0.12715 0.14655 0.07245 0.02010 -0.01550 -0.00600 101 YWK A F02
89 F F03 . YWK B . ? 0.16075 0.14605 0.10055 -0.01340 -0.01740 -0.02570 101 YWK A F03
90 F F04 . YWK B . ? 0.19165 0.14565 0.08845 0.03400 0.00640 -0.02700 101 YWK A F04
91 F F05 . YWK B . ? 0.21335 0.13885 0.08595 0.03520 -0.00700 -0.00460 101 YWK A F05
92 O O01 . YWK B . ? 0.11295 0.14555 0.08135 0.03140 -0.00860 -0.00900 101 YWK A O01
93 O O02 . YWK B . ? 0.10445 0.12165 0.08415 -0.00540 0.00250 -0.01430 101 YWK A O02
94 O O . HOH C . ? 0.06085 0.07705 0.06945 -0.00690 -0.00520 -0.00610 201 HOH A O
#
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 MET 1 35 35 MET MET A . n
A 1 2 VAL 2 36 36 VAL VAL A . n
A 1 3 GLY 3 37 37 GLY GLY A . n
A 1 4 GLY 4 38 38 GLY GLY A . n
A 1 5 VAL 5 39 39 VAL VAL A . n
A 1 6 VAL 6 40 40 VAL VAL A . n
#
_pdbx_contact_author.id 2
_pdbx_contact_author.email jraskato@ucsc.edu
_pdbx_contact_author.name_first Jevgenij
_pdbx_contact_author.name_last Raskatov
_pdbx_contact_author.name_mi A
_pdbx_contact_author.role 'principal investigator/group leader'
_pdbx_contact_author.identifier_ORCID 0000-0002-0082-9113
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.pdb_ins_code
B 2 YWK 1 101 101 YWK LIG A .
C 3 HOH 1 201 102 HOH HOH A .
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details author_defined_assembly
_pdbx_struct_assembly.method_details ?
_pdbx_struct_assembly.oligomeric_details hexameric
_pdbx_struct_assembly.oligomeric_count 6
#
loop_
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
_pdbx_struct_assembly_gen.asym_id_list
1 1 A,B,C
1 2 A,B,C
1 3 A,B,C
1 4 A,B,C
1 5 A,B,C
1 6 A,B,C
#
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' 1_655 x+1,y,z 1.0000000000 0.0000000000 0.0000000000 9.5600000000 0.0000000000
1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
3 'crystal symmetry operation' 1_455 x-1,y,z 1.0000000000 0.0000000000 0.0000000000 -9.5600000000 0.0000000000
1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
4 'crystal symmetry operation' 3_566 -x,-y+1,-z+1 -1.0000000000 0.0000000000 0.0000000000 -3.0429094850 0.0000000000
-1.0000000000 0.0000000000 18.5700000000 0.0000000000 0.0000000000 -1.0000000000 20.6065426956
5 'crystal symmetry operation' 3_666 -x+1,-y+1,-z+1 -1.0000000000 0.0000000000 0.0000000000 6.5170905150 0.0000000000
-1.0000000000 0.0000000000 18.5700000000 0.0000000000 0.0000000000 -1.0000000000 20.6065426956
6 'crystal symmetry operation' 3_466 -x-1,-y+1,-z+1 -1.0000000000 0.0000000000 0.0000000000 -12.6029094850 0.0000000000
-1.0000000000 0.0000000000 18.5700000000 0.0000000000 0.0000000000 -1.0000000000 20.6065426956
#
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 2023-11-29
2 'Structure model' 1 1 2023-12-13
#
_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 ?
#
_pdbx_audit_revision_group.ordinal 1
_pdbx_audit_revision_group.revision_ordinal 2
_pdbx_audit_revision_group.data_content_type 'Structure model'
_pdbx_audit_revision_group.group 'Database references'
#
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 2 'Structure model' citation
2 2 'Structure model' citation_author
#
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 2 'Structure model' '_citation.journal_volume'
2 2 'Structure model' '_citation.page_first'
3 2 'Structure model' '_citation.page_last'
4 2 'Structure model' '_citation_author.identifier_ORCID'
#
loop_
_space_group_symop.id
_space_group_symop.operation_xyz
1 x,y,z
2 -x,y+1/2,-z+1/2
3 -x,-y,-z
4 x,-y-1/2,z-1/2
#
loop_
_software.citation_id
_software.classification
_software.compiler_name
_software.compiler_version
_software.contact_author
_software.contact_author_email
_software.date
_software.description
_software.dependencies
_software.hardware
_software.language
_software.location
_software.mods
_software.name
_software.os
_software.os_version
_software.type
_software.version
_software.pdbx_ordinal
? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1_4487 1
? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? 20220820 2
? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? 20220820 3
? phasing ? ? ? ? ? ? ? ? ? ? ? SHELXD ? ? ? 2013/2 4
#
_pdbx_entry_details.entry_id 8T82
_pdbx_entry_details.has_ligand_of_interest Y
_pdbx_entry_details.compound_details ?
_pdbx_entry_details.source_details ?
_pdbx_entry_details.nonpolymer_details ?
_pdbx_entry_details.sequence_details ?
#
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
GLY N N N N 1
GLY CA C N N 2
GLY C C N N 3
GLY O O N N 4
GLY OXT O N N 5
GLY H H N N 6
GLY H2 H N N 7
GLY HA2 H N N 8
GLY HA3 H N N 9
GLY HXT H N N 10
HOH O O N N 11
HOH H1 H N N 12
HOH H2 H N N 13
MET N N N N 14
MET CA C N S 15
MET C C N N 16
MET O O N N 17
MET CB C N N 18
MET CG C N N 19
MET SD S N N 20
MET CE C N N 21
MET OXT O N N 22
MET H H N N 23
MET H2 H N N 24
MET HA H N N 25
MET HB2 H N N 26
MET HB3 H N N 27
MET HG2 H N N 28
MET HG3 H N N 29
MET HE1 H N N 30
MET HE2 H N N 31
MET HE3 H N N 32
MET HXT H N N 33
VAL N N N N 34
VAL CA C N S 35
VAL C C N N 36
VAL O O N N 37
VAL CB C N N 38
VAL CG1 C N N 39
VAL CG2 C N N 40
VAL OXT O N N 41
VAL H H N N 42
VAL H2 H N N 43
VAL HA H N N 44
VAL HB H N N 45
VAL HG11 H N N 46
VAL HG12 H N N 47
VAL HG13 H N N 48
VAL HG21 H N N 49
VAL HG22 H N N 50
VAL HG23 H N N 51
VAL HXT H N N 52
YWK C01 C N N 53
YWK C02 C N N 54
YWK C03 C N N 55
YWK F01 F N N 56
YWK F02 F N N 57
YWK F03 F N N 58
YWK F04 F N N 59
YWK F05 F N N 60
YWK O01 O N N 61
YWK O02 O N N 62
YWK H1 H N N 63
#
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
GLY N CA sing N N 1
GLY N H sing N N 2
GLY N H2 sing N N 3
GLY CA C sing N N 4
GLY CA HA2 sing N N 5
GLY CA HA3 sing N N 6
GLY C O doub N N 7
GLY C OXT sing N N 8
GLY OXT HXT sing N N 9
HOH O H1 sing N N 10
HOH O H2 sing N N 11
MET N CA sing N N 12
MET N H sing N N 13
MET N H2 sing N N 14
MET CA C sing N N 15
MET CA CB sing N N 16
MET CA HA sing N N 17
MET C O doub N N 18
MET C OXT sing N N 19
MET CB CG sing N N 20
MET CB HB2 sing N N 21
MET CB HB3 sing N N 22
MET CG SD sing N N 23
MET CG HG2 sing N N 24
MET CG HG3 sing N N 25
MET SD CE sing N N 26
MET CE HE1 sing N N 27
MET CE HE2 sing N N 28
MET CE HE3 sing N N 29
MET OXT HXT sing N N 30
VAL N CA sing N N 31
VAL N H sing N N 32
VAL N H2 sing N N 33
VAL CA C sing N N 34
VAL CA CB sing N N 35
VAL CA HA sing N N 36
VAL C O doub N N 37
VAL C OXT sing N N 38
VAL CB CG1 sing N N 39
VAL CB CG2 sing N N 40
VAL CB HB sing N N 41
VAL CG1 HG11 sing N N 42
VAL CG1 HG12 sing N N 43
VAL CG1 HG13 sing N N 44
VAL CG2 HG21 sing N N 45
VAL CG2 HG22 sing N N 46
VAL CG2 HG23 sing N N 47
VAL OXT HXT sing N N 48
YWK F04 C02 sing N N 49
YWK F02 C01 sing N N 50
YWK F03 C02 sing N N 51
YWK C02 C01 sing N N 52
YWK C02 F05 sing N N 53
YWK F01 C01 sing N N 54
YWK C01 C03 sing N N 55
YWK C03 O02 doub N N 56
YWK C03 O01 sing N N 57
YWK O01 H1 sing N N 58
#
_pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute on Aging (NIH/NIA)'
_pdbx_audit_support.country 'United States'
_pdbx_audit_support.grant_number AG074954
_pdbx_audit_support.ordinal 1
#
_pdbx_entity_instance_feature.ordinal 1
_pdbx_entity_instance_feature.comp_id YWK
_pdbx_entity_instance_feature.asym_id ?
_pdbx_entity_instance_feature.seq_num ?
_pdbx_entity_instance_feature.auth_comp_id YWK
_pdbx_entity_instance_feature.auth_asym_id ?
_pdbx_entity_instance_feature.auth_seq_num ?
_pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION'
_pdbx_entity_instance_feature.details ?
#
loop_
_pdbx_entity_nonpoly.entity_id
_pdbx_entity_nonpoly.name
_pdbx_entity_nonpoly.comp_id
2 'pentafluoropropanoic acid' YWK
3 water HOH
#
_space_group.name_H-M_alt 'P 1 21/c 1'
_space_group.name_Hall '-P 2ybc'
_space_group.IT_number 14
_space_group.crystal_system monoclinic
_space_group.id 1
#