data_3SGM # _entry.id 3SGM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3SGM RCSB RCSB066177 WWPDB D_1000066177 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3SGN 'Bromoderivative-8 of amyloid-related segment of alphaB-crystallin residues 90-100' unspecified PDB 3SGO 'Amyloid-related segment of alphaB-crystallin residues 90-100' unspecified PDB 3SGP 'Amyloid-related segment of alphaB-crystallin residues 90-100 mutant V91L' unspecified PDB 3SGR 'Tandem repeat of amyloid-related segment of alphaB-crystallin residues 90-100 mutant V91L' unspecified PDB 3SGS 'Amyloid-related segment of alphaB-crystallin residues 95-100' unspecified # _pdbx_database_status.entry_id 3SGM _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 2011-06-15 _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Laganowsky, A.' 1 'Sawaya, M.R.' 2 'Cascio, D.' 3 'Eisenberg, D.' 4 # _citation.id primary _citation.title 'Atomic view of a toxic amyloid small oligomer.' _citation.journal_abbrev Science _citation.journal_volume 335 _citation.page_first 1228 _citation.page_last 1231 _citation.year 2012 _citation.journal_id_ASTM SCIEAS _citation.country US _citation.journal_id_ISSN 0036-8075 _citation.journal_id_CSD 0038 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22403391 _citation.pdbx_database_id_DOI 10.1126/science.1213151 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Laganowsky, A.' 1 primary 'Liu, C.' 2 primary 'Sawaya, M.R.' 3 primary 'Whitelegge, J.P.' 4 primary 'Park, J.' 5 primary 'Zhao, M.' 6 primary 'Pensalfini, A.' 7 primary 'Soriaga, A.B.' 8 primary 'Landau, M.' 9 primary 'Teng, P.K.' 10 primary 'Cascio, D.' 11 primary 'Glabe, C.' 12 primary 'Eisenberg, D.' 13 # _cell.length_a 65.995 _cell.length_b 65.995 _cell.length_c 65.995 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 3SGM _cell.pdbx_unique_axis ? _cell.Z_PDB 96 _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.space_group_name_H-M 'I 21 3' _symmetry.entry_id 3SGM _symmetry.Int_Tables_number 199 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # 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 'Alpha-crystallin B chain' 1277.348 4 ? ? ? ? 2 non-polymer syn '(4S)-2-METHYL-2,4-PENTANEDIOL' 118.174 1 ? ? ? ? 3 water nat water 18.015 16 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Alpha(B)-crystallin, Heat shock protein beta-5, HspB5, Renal carcinoma antigen NY-REN-27, Rosenthal fiber component' # _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 'K(A8E)KVLGDVIEV' _entity_poly.pdbx_seq_one_letter_code_can KXKVLGDVIEV _entity_poly.pdbx_strand_id A,B,C,D _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 LYS n 1 2 A8E n 1 3 LYS n 1 4 VAL n 1 5 LEU n 1 6 GLY n 1 7 ASP n 1 8 VAL n 1 9 ILE n 1 10 GLU n 1 11 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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _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 'synthetic peptide' # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code CRYAB_HUMAN _struct_ref.pdbx_db_accession P02511 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code KVKVLGDVIEV _struct_ref.pdbx_align_begin 90 _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 3SGM A 1 ? 11 ? P02511 90 ? 100 ? 1 11 2 1 3SGM B 1 ? 11 ? P02511 90 ? 100 ? 1 11 3 1 3SGM C 1 ? 11 ? P02511 90 ? 100 ? 1 11 4 1 3SGM D 1 ? 11 ? P02511 90 ? 100 ? 1 11 # 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 A8E 'L-peptide linking' n '(2S)-2-amino-4-bromopent-4-enoic acid' ? 'C5 H8 Br N O2' 194.027 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 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 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 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.entry_id 3SGM _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.34 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 47.52 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details '0.1M TRIS pH 7.0, 35% MPD, 0.2M SODIUM CHLORIDE, vapor diffusion, hanging drop, temperature 298K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 100 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 CCD 'ADSC QUANTUM 315' 2009-01-27 ? 2 CCD 'ADSC QUANTUM 315' 2009-01-27 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.monochromator _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.pdbx_scattering_type 1 'SINGLE WAVELENGTH' ? 1 M x-ray 2 'SINGLE WAVELENGTH' ? 1 M x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.92 1.0 2 1.00 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_wavelength_list _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline 1 SYNCHROTRON 'ALS BEAMLINE 8.2.2' 0.92 ? ALS 8.2.2 2 SYNCHROTRON 'ALS BEAMLINE 8.2.2' 1.00 ? ALS 8.2.2 # _reflns.entry_id 3SGM _reflns.d_resolution_high 1.620 _reflns.d_resolution_low 50.000 _reflns.number_obs 6043 _reflns.pdbx_Rmerge_I_obs 0.033 _reflns.pdbx_netI_over_sigmaI 28.600 _reflns.pdbx_chi_squared 1.004 _reflns.pdbx_redundancy 3.600 _reflns.percent_possible_obs 97.200 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _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_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1,2 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.620 1.680 ? ? ? 0.286 ? ? 1.008 3.700 ? 613 98.700 1 1,2 1.680 1.750 ? ? ? 0.188 ? ? 1.010 3.700 ? 578 97.500 2 1,2 1.750 1.820 ? ? ? 0.131 ? ? 1.006 3.800 ? 613 98.600 3 1,2 1.820 1.920 ? ? ? 0.091 ? ? 1.003 3.800 ? 596 97.900 4 1,2 1.920 2.040 ? ? ? 0.061 ? ? 1.005 3.700 ? 619 99.200 5 1,2 2.040 2.200 ? ? ? 0.051 ? ? 1.005 3.700 ? 605 98.200 6 1,2 2.200 2.420 ? ? ? 0.041 ? ? 0.997 3.600 ? 590 96.900 7 1,2 2.420 2.770 ? ? ? 0.031 ? ? 1.003 3.400 ? 600 96.600 8 1,2 2.770 3.490 ? ? ? 0.023 ? ? 0.999 3.200 ? 602 94.700 9 1,2 3.490 50.000 ? ? ? 0.017 ? ? 1.000 3.400 ? 627 94.100 10 1,2 # _refine.entry_id 3SGM _refine.ls_d_res_high 1.7006 _refine.ls_d_res_low 32.9980 _refine.pdbx_ls_sigma_F 1.410 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.9800 _refine.ls_number_reflns_obs 5409 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details ? _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1944 _refine.ls_R_factor_R_work 0.1922 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2397 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.7500 _refine.ls_number_reflns_R_free 257 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 21.8548 _refine.solvent_model_param_bsol 60.9660 _refine.solvent_model_param_ksol 0.4300 _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.0000 _refine.aniso_B[2][2] 0.0000 _refine.aniso_B[3][3] 0.0000 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.3200 _refine.overall_SU_B ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.pdbx_solvent_vdw_probe_radii 1.1000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.8300 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.8159 _refine.B_iso_max 43.960 _refine.B_iso_min 10.470 _refine.pdbx_overall_phase_error 24.2900 _refine.occupancy_max 1.000 _refine.occupancy_min 0.350 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_diffrn_id 1,2 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 340 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 8 _refine_hist.number_atoms_solvent 16 _refine_hist.number_atoms_total 364 _refine_hist.d_res_high 1.7006 _refine_hist.d_res_low 32.9980 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 361 0.014 ? ? ? 'X-RAY DIFFRACTION' f_angle_d 488 1.796 ? ? ? 'X-RAY DIFFRACTION' f_chiral_restr 65 0.092 ? ? ? 'X-RAY DIFFRACTION' f_plane_restr 61 0.004 ? ? ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 146 16.558 ? ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id 1.7006 2.1425 2 100.0000 2533 . 0.1378 0.2062 . 140 . 2673 . . 'X-RAY DIFFRACTION' 2.1425 33.0037 2 100.0000 2619 . 0.2119 0.2543 . 117 . 2736 . . 'X-RAY DIFFRACTION' # _struct.entry_id 3SGM _struct.title 'Bromoderivative-2 of amyloid-related segment of alphaB-crystallin residues 90-100' _struct.pdbx_descriptor 'Alpha-crystallin B chain' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3SGM _struct_keywords.text 'amyloid, amyloid oligomer, beta cylindrin, 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 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 3 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? A A8E 2 C ? ? ? 1_555 A LYS 3 N ? ? A A8E 2 A LYS 3 1_555 ? ? ? ? ? ? ? 1.324 ? covale2 covale ? ? B A8E 2 C ? ? ? 1_555 B LYS 3 N ? ? B A8E 2 B LYS 3 1_555 ? ? ? ? ? ? ? 1.318 ? covale3 covale ? ? C A8E 2 C ? ? ? 1_555 C LYS 3 N ? ? C A8E 2 C LYS 3 1_555 ? ? ? ? ? ? ? 1.332 ? covale4 covale ? ? D A8E 2 C ? ? ? 1_555 D LYS 3 N ? ? D A8E 2 D LYS 3 1_555 ? ? ? ? ? ? ? 1.336 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 2 ? # 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 B 1 2 ? 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 A8E A 2 ? GLU A 10 ? A8E A 2 GLU A 10 A 2 A8E B 2 ? GLU B 10 ? A8E B 2 GLU B 10 B 1 A8E C 2 ? GLU C 10 ? A8E C 2 GLU C 10 B 2 A8E D 2 ? GLU D 10 ? A8E D 2 GLU D 10 # 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 ILE A 9 ? N ILE A 9 O LYS B 3 ? O LYS B 3 B 1 2 N LYS C 3 ? N LYS C 3 O ILE D 9 ? O ILE D 9 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id ? _struct_site.pdbx_auth_comp_id ? _struct_site.pdbx_auth_seq_id ? _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 3 _struct_site.details 'BINDING SITE FOR RESIDUE MPD B 12' # 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 3 VAL B 8 ? VAL B 8 . ? 1_555 ? 2 AC1 3 HOH G . ? HOH B 20 . ? 1_555 ? 3 AC1 3 HOH H . ? HOH C 15 . ? 1_555 ? # _atom_sites.entry_id 3SGM _atom_sites.fract_transf_matrix[1][1] 0.015153 _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] 0.015153 _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] 0.015153 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol BR C N 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 LYS 1 1 1 LYS LYS A . n A 1 2 A8E 2 2 2 A8E A8E A . n A 1 3 LYS 3 3 3 LYS LYS A . n A 1 4 VAL 4 4 4 VAL VAL A . n A 1 5 LEU 5 5 5 LEU LEU A . n A 1 6 GLY 6 6 6 GLY GLY A . n A 1 7 ASP 7 7 7 ASP ASP A . n A 1 8 VAL 8 8 8 VAL VAL A . n A 1 9 ILE 9 9 9 ILE ILE A . n A 1 10 GLU 10 10 10 GLU GLU A . n A 1 11 VAL 11 11 11 VAL VAL A . n B 1 1 LYS 1 1 1 LYS LYS B . n B 1 2 A8E 2 2 2 A8E A8E B . n B 1 3 LYS 3 3 3 LYS LYS B . n B 1 4 VAL 4 4 4 VAL VAL B . n B 1 5 LEU 5 5 5 LEU LEU B . n B 1 6 GLY 6 6 6 GLY GLY B . n B 1 7 ASP 7 7 7 ASP ASP B . n B 1 8 VAL 8 8 8 VAL VAL B . n B 1 9 ILE 9 9 9 ILE ILE B . n B 1 10 GLU 10 10 10 GLU GLU B . n B 1 11 VAL 11 11 11 VAL VAL B . n C 1 1 LYS 1 1 1 LYS LYS C . n C 1 2 A8E 2 2 2 A8E A8E C . n C 1 3 LYS 3 3 3 LYS LYS C . n C 1 4 VAL 4 4 4 VAL VAL C . n C 1 5 LEU 5 5 5 LEU LEU C . n C 1 6 GLY 6 6 6 GLY GLY C . n C 1 7 ASP 7 7 7 ASP ASP C . n C 1 8 VAL 8 8 8 VAL VAL C . n C 1 9 ILE 9 9 9 ILE ILE C . n C 1 10 GLU 10 10 10 GLU GLU C . n C 1 11 VAL 11 11 11 VAL VAL C . n D 1 1 LYS 1 1 1 LYS LYS D . n D 1 2 A8E 2 2 2 A8E A8E D . n D 1 3 LYS 3 3 3 LYS LYS D . n D 1 4 VAL 4 4 4 VAL VAL D . n D 1 5 LEU 5 5 5 LEU LEU D . n D 1 6 GLY 6 6 6 GLY GLY D . n D 1 7 ASP 7 7 7 ASP ASP D . n D 1 8 VAL 8 8 8 VAL VAL D . n D 1 9 ILE 9 9 9 ILE ILE D . n D 1 10 GLU 10 10 10 GLU GLU D . n D 1 11 VAL 11 11 11 VAL VAL D . n # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A A8E 2 A A8E 2 ? VAL '(2S)-2-AMINO-4-BROMOPENT-4-ENOIC ACID' 2 B A8E 2 B A8E 2 ? VAL '(2S)-2-AMINO-4-BROMOPENT-4-ENOIC ACID' 3 C A8E 2 C A8E 2 ? VAL '(2S)-2-AMINO-4-BROMOPENT-4-ENOIC ACID' 4 D A8E 2 D A8E 2 ? VAL '(2S)-2-AMINO-4-BROMOPENT-4-ENOIC ACID' # 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 software_defined_assembly PISA hexameric 6 2 author_and_software_defined_assembly PISA hexameric 6 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2,3 A,B,E,F,G 2 1,2,3 C,D,H,I # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 5870 ? 1 MORE -30 ? 1 'SSA (A^2)' 4230 ? 2 'ABSA (A^2)' 6530 ? 2 MORE -51 ? 2 'SSA (A^2)' 4480 ? # 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' 5_555 z,x,y 0.0000000000 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 3 'crystal symmetry operation' 9_555 y,z,x 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2012-03-21 # _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 ? # _phasing.method MAD # 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 DENZO . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 SHELX . ? package 'George M. Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 4 DM . ? program 'Kevin Cowtan' kowtan@ysbl.york.ac.uk phasing http://www.ccp4.ac.uk/dist/html/dm.html Fortran_77 ? 5 PHENIX 1.7.1_743 ? package 'Paul D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 6 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 7 SHELXD . ? ? ? ? phasing ? ? ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 '(4S)-2-METHYL-2,4-PENTANEDIOL' MPD 3 water HOH # 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 MPD 1 12 1 MPD MPD B . F 3 HOH 1 13 10 HOH HOH A . F 3 HOH 2 15 15 HOH HOH A . F 3 HOH 3 16 16 HOH HOH A . F 3 HOH 4 17 17 HOH HOH A . F 3 HOH 5 18 3 HOH HOH A . G 3 HOH 1 14 1 HOH HOH B . G 3 HOH 2 20 20 HOH HOH B . H 3 HOH 1 12 1 HOH HOH C . H 3 HOH 2 13 2 HOH HOH C . H 3 HOH 3 14 7 HOH HOH C . H 3 HOH 4 15 9 HOH HOH C . H 3 HOH 5 18 18 HOH HOH C . I 3 HOH 1 12 12 HOH HOH D . I 3 HOH 2 13 13 HOH HOH D . I 3 HOH 3 17 17 HOH HOH D . I 3 HOH 4 19 19 HOH HOH D . #