data_4E82 # _entry.id 4E82 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.381 _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 4E82 pdb_00004e82 10.2210/pdb4e82/pdb RCSB RCSB071286 ? ? WWPDB D_1000071286 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1ZMP 'Crystal structure of wild type HD5' unspecified PDB 4E83 'Crystal structure of human alpha-defensin 5, HD5 (Leu29Nle mutant)' unspecified PDB 4E86 'Crystal structure of human alpha-defensin 5, HD5 (Leu29Aba mutant)' unspecified # _pdbx_database_status.entry_id 4E82 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2012-03-19 _pdbx_database_status.status_code REL _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.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Pazgier, M.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Functional determinants of human enteric {alpha}-defensin HD5: crucial role for hydrophobicity at dimer interface.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 287 _citation.page_first 21615 _citation.page_last 21627 _citation.year 2012 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22573326 _citation.pdbx_database_id_DOI 10.1074/jbc.M112.367995 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Rajabi, M.' 1 ? primary 'Ericksen, B.' 2 ? primary 'Wu, X.' 3 ? primary 'de Leeuw, E.' 4 ? primary 'Zhao, L.' 5 ? primary 'Pazgier, M.' 6 ? primary 'Lu, W.' 7 ? # _cell.length_a 22.317 _cell.length_b 37.733 _cell.length_c 59.852 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 4E82 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 'P 21 21 21' _symmetry.entry_id 4E82 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.Int_Tables_number 19 _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 Defensin-5 3608.255 2 ? ? 'UNP residues 63-94' ? 2 water nat water 18.015 55 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'alpha-defensin 5, HD5, Defensin, alpha 5' # _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 'ATCYCRTGRCATRESLSGVC(EME)ISGRLYRLCCR' _entity_poly.pdbx_seq_one_letter_code_can ATCYCRTGRCATRESLSGVCXISGRLYRLCCR _entity_poly.pdbx_strand_id A,B _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 ALA n 1 2 THR n 1 3 CYS n 1 4 TYR n 1 5 CYS n 1 6 ARG n 1 7 THR n 1 8 GLY n 1 9 ARG n 1 10 CYS n 1 11 ALA n 1 12 THR n 1 13 ARG n 1 14 GLU n 1 15 SER n 1 16 LEU n 1 17 SER n 1 18 GLY n 1 19 VAL n 1 20 CYS n 1 21 EME n 1 22 ILE n 1 23 SER n 1 24 GLY n 1 25 ARG n 1 26 LEU n 1 27 TYR n 1 28 ARG n 1 29 LEU n 1 30 CYS n 1 31 CYS n 1 32 ARG 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code DEF5_HUMAN _struct_ref.pdbx_db_accession Q01523 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ATCYCRTGRCATRESLSGVCEISGRLYRLCCR _struct_ref.pdbx_align_begin 63 _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 4E82 A 1 ? 32 ? Q01523 63 ? 94 ? 1 32 2 1 4E82 B 1 ? 32 ? Q01523 63 ? 94 ? 1 32 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 EME 'L-peptide linking' n 'N-methyl-L-glutamic acid' ? 'C6 H11 N O4' 161.156 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 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.entry_id 4E82 _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.75 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 29.55 _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 7.5 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details ;0.1 M sodium citrate tribasic dehydrate, 0.1 M HEPES sodium, 20% isopropanol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV++' _diffrn_detector.pdbx_collection_date 2009-06-17 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.54 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU MICROMAX-007' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.54 _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? # _reflns.entry_id 4E82 _reflns.observed_criterion_sigma_F 1 _reflns.observed_criterion_sigma_I 1 _reflns.d_resolution_high 1.66 _reflns.d_resolution_low 50.0 _reflns.number_all 11157 _reflns.number_obs 6204 _reflns.percent_possible_obs 56 _reflns.pdbx_Rmerge_I_obs 0.122 _reflns.pdbx_Rsym_value 0.165 _reflns.pdbx_netI_over_sigmaI 17.5 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.5 _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_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.66 _reflns_shell.d_res_low 1.69 _reflns_shell.percent_possible_obs ? _reflns_shell.percent_possible_all 92.3 _reflns_shell.Rmerge_I_obs 0.180 _reflns_shell.meanI_over_sigI_obs 3.8 _reflns_shell.pdbx_Rsym_value 0.180 _reflns_shell.pdbx_redundancy 6.6 _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 4E82 _refine.ls_d_res_high 1.700 _refine.ls_d_res_low 20.0 _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 96.52 _refine.ls_number_reflns_obs 5743 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'U VALUES : WITH TLS ADDED' _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1721 _refine.ls_R_factor_R_work 0.1702 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2124 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.6 _refine.ls_number_reflns_R_free 265 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 26.7686 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.2900 _refine.aniso_B[2][2] 0.2900 _refine.aniso_B[3][3] -0.5800 _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 0.9680 _refine.correlation_coeff_Fo_to_Fc_free 0.9460 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R 0.1210 _refine.pdbx_overall_ESU_R_Free 0.1170 _refine.overall_SU_ML 0.0650 _refine.overall_SU_B 4.0910 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 'PDB ENTRY 1ZMP' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 78.970 _refine.B_iso_min 15.130 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _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 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 492 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 55 _refine_hist.number_atoms_total 547 _refine_hist.d_res_high 1.700 _refine_hist.d_res_low 20.0 # 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 r_bond_refined_d 496 0.015 0.019 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 658 1.805 2.009 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 58 7.321 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 18 6.354 14.444 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 86 12.684 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 12 17.098 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 74 0.111 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 348 0.008 0.020 ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_restr_ncs.pdbx_refine_id _refine_ls_restr_ncs.pdbx_ens_id _refine_ls_restr_ncs.dom_id _refine_ls_restr_ncs.pdbx_type _refine_ls_restr_ncs.pdbx_auth_asym_id _refine_ls_restr_ncs.pdbx_number _refine_ls_restr_ncs.rms_dev_position _refine_ls_restr_ncs.weight_position _refine_ls_restr_ncs.pdbx_ordinal _refine_ls_restr_ncs.ncs_model_details _refine_ls_restr_ncs.rms_dev_B_iso _refine_ls_restr_ncs.weight_B_iso _refine_ls_restr_ncs.pdbx_asym_id _refine_ls_restr_ncs.pdbx_rms _refine_ls_restr_ncs.pdbx_weight 'X-RAY DIFFRACTION' 1 1 . A 18 0.110 0.050 1 ? ? ? ? ? ? 'X-RAY DIFFRACTION' 1 2 . B 18 0.110 0.050 2 ? ? ? ? ? ? 'X-RAY DIFFRACTION' 2 1 . A 10 0.090 0.050 3 ? ? ? ? ? ? 'X-RAY DIFFRACTION' 2 2 . B 10 0.090 0.050 4 ? ? ? ? ? ? # _refine_ls_shell.d_res_high 1.700 _refine_ls_shell.d_res_low 1.744 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 95.33 _refine_ls_shell.number_reflns_R_work 332 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.1950 _refine_ls_shell.R_factor_R_free 0.2930 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 15 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 347 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _struct_ncs_dom.pdbx_ens_id _struct_ncs_dom.id _struct_ncs_dom.details 1 1 A 1 2 B 2 1 A 2 2 B # loop_ _struct_ncs_dom_lim.pdbx_ens_id _struct_ncs_dom_lim.dom_id _struct_ncs_dom_lim.pdbx_component_id _struct_ncs_dom_lim.beg_label_asym_id _struct_ncs_dom_lim.beg_label_comp_id _struct_ncs_dom_lim.beg_label_seq_id _struct_ncs_dom_lim.beg_label_alt_id _struct_ncs_dom_lim.end_label_asym_id _struct_ncs_dom_lim.end_label_comp_id _struct_ncs_dom_lim.end_label_seq_id _struct_ncs_dom_lim.end_label_alt_id _struct_ncs_dom_lim.beg_auth_asym_id _struct_ncs_dom_lim.beg_auth_comp_id _struct_ncs_dom_lim.beg_auth_seq_id _struct_ncs_dom_lim.end_auth_asym_id _struct_ncs_dom_lim.end_auth_comp_id _struct_ncs_dom_lim.end_auth_seq_id _struct_ncs_dom_lim.pdbx_refine_code _struct_ncs_dom_lim.selection_details 1 1 0 A ALA 1 . A CYS 20 . A ALA 1 A CYS 20 0 ? 1 2 0 B ALA 1 . B CYS 20 . B ALA 1 B CYS 20 0 ? 2 1 0 A ILE 22 . A ARG 32 . A ILE 22 A ARG 32 0 ? 2 2 0 B ILE 22 . B ARG 32 . B ILE 22 B ARG 32 0 ? # loop_ _struct_ncs_ens.id _struct_ncs_ens.details 1 ? 2 ? # _struct.entry_id 4E82 _struct.title 'Crystal structure of monomeric variant of human alpha-defensin 5, HD5 (Glu21EMe mutant)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4E82 _struct_keywords.pdbx_keywords 'ANTIMICROBIAL PROTEIN' _struct_keywords.text 'monomeric variant, antimicrobial peptide, Glu21 methylation, Paneth cells, ANTIMICROBIAL PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? # _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 _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 3 SG ? ? ? 1_555 A CYS 31 SG ? ? A CYS 3 A CYS 31 1_555 ? ? ? ? ? ? ? 2.016 ? ? disulf2 disulf ? ? A CYS 5 SG ? ? ? 1_555 A CYS 20 SG ? ? A CYS 5 A CYS 20 1_555 ? ? ? ? ? ? ? 2.026 ? ? disulf3 disulf ? ? A CYS 10 SG ? ? ? 1_555 A CYS 30 SG ? ? A CYS 10 A CYS 30 1_555 ? ? ? ? ? ? ? 2.001 ? ? disulf4 disulf ? ? B CYS 3 SG ? ? ? 1_555 B CYS 31 SG ? ? B CYS 3 B CYS 31 1_555 ? ? ? ? ? ? ? 2.051 ? ? disulf5 disulf ? ? B CYS 5 SG ? ? ? 1_555 B CYS 20 SG ? ? B CYS 5 B CYS 20 1_555 ? ? ? ? ? ? ? 2.030 ? ? disulf6 disulf ? ? B CYS 10 SG ? ? ? 1_555 B CYS 30 SG ? ? B CYS 10 B CYS 30 1_555 ? ? ? ? ? ? ? 2.042 ? ? covale1 covale both ? A CYS 20 C ? ? ? 1_555 A EME 21 N ? ? A CYS 20 A EME 21 1_555 ? ? ? ? ? ? ? 1.494 ? ? covale2 covale both ? A EME 21 C ? ? ? 1_555 A ILE 22 N ? ? A EME 21 A ILE 22 1_555 ? ? ? ? ? ? ? 1.482 ? ? covale3 covale both ? B CYS 20 C ? ? ? 1_555 B EME 21 N ? ? B CYS 20 B EME 21 1_555 ? ? ? ? ? ? ? 1.438 ? ? covale4 covale both ? B EME 21 C ? ? ? 1_555 B ILE 22 N ? ? B EME 21 B ILE 22 1_555 ? ? ? ? ? ? ? 1.436 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? B ? 3 ? C ? 3 ? D ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 CYS A 3 ? ARG A 6 ? CYS A 3 ARG A 6 A 2 ARG A 25 ? CYS A 31 ? ARG A 25 CYS A 31 A 3 SER A 15 ? CYS A 20 ? SER A 15 CYS A 20 B 1 CYS A 3 ? ARG A 6 ? CYS A 3 ARG A 6 B 2 ARG A 25 ? CYS A 31 ? ARG A 25 CYS A 31 B 3 ILE A 22 ? ILE A 22 ? ILE A 22 ILE A 22 C 1 CYS B 3 ? ARG B 6 ? CYS B 3 ARG B 6 C 2 ARG B 25 ? CYS B 31 ? ARG B 25 CYS B 31 C 3 CYS B 20 ? CYS B 20 ? CYS B 20 CYS B 20 D 1 SER B 15 ? LEU B 16 ? SER B 15 LEU B 16 D 2 ARG B 25 ? CYS B 31 ? ARG B 25 CYS B 31 D 3 ILE B 22 ? ILE B 22 ? ILE B 22 ILE B 22 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N TYR A 4 ? N TYR A 4 O CYS A 30 ? O CYS A 30 A 2 3 O LEU A 29 ? O LEU A 29 N SER A 17 ? N SER A 17 B 1 2 N TYR A 4 ? N TYR A 4 O CYS A 30 ? O CYS A 30 B 2 3 O ARG A 25 ? O ARG A 25 N ILE A 22 ? N ILE A 22 C 1 2 N TYR B 4 ? N TYR B 4 O CYS B 30 ? O CYS B 30 C 2 3 O TYR B 27 ? O TYR B 27 N CYS B 20 ? N CYS B 20 D 1 2 N SER B 15 ? N SER B 15 O CYS B 31 ? O CYS B 31 D 2 3 O ARG B 25 ? O ARG B 25 N ILE B 22 ? N ILE B 22 # _atom_sites.entry_id 4E82 _atom_sites.fract_transf_matrix[1][1] 0.044809 _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] 0.026502 _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] 0.016708 _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 C N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ALA 1 1 1 ALA ALA A . n A 1 2 THR 2 2 2 THR THR A . n A 1 3 CYS 3 3 3 CYS CYS A . n A 1 4 TYR 4 4 4 TYR TYR A . n A 1 5 CYS 5 5 5 CYS CYS A . n A 1 6 ARG 6 6 6 ARG ARG A . n A 1 7 THR 7 7 7 THR THR A . n A 1 8 GLY 8 8 8 GLY GLY A . n A 1 9 ARG 9 9 9 ARG ARG A . n A 1 10 CYS 10 10 10 CYS CYS A . n A 1 11 ALA 11 11 11 ALA ALA A . n A 1 12 THR 12 12 12 THR THR A . n A 1 13 ARG 13 13 13 ARG ARG A . n A 1 14 GLU 14 14 14 GLU GLU A . n A 1 15 SER 15 15 15 SER SER A . n A 1 16 LEU 16 16 16 LEU LEU A . n A 1 17 SER 17 17 17 SER SER A . n A 1 18 GLY 18 18 18 GLY GLY A . n A 1 19 VAL 19 19 19 VAL VAL A . n A 1 20 CYS 20 20 20 CYS CYS A . n A 1 21 EME 21 21 21 EME EME A . n A 1 22 ILE 22 22 22 ILE ILE A . n A 1 23 SER 23 23 23 SER SER A . n A 1 24 GLY 24 24 24 GLY GLY A . n A 1 25 ARG 25 25 25 ARG ARG A . n A 1 26 LEU 26 26 26 LEU LEU A . n A 1 27 TYR 27 27 27 TYR TYR A . n A 1 28 ARG 28 28 28 ARG ARG A . n A 1 29 LEU 29 29 29 LEU LEU A . n A 1 30 CYS 30 30 30 CYS CYS A . n A 1 31 CYS 31 31 31 CYS CYS A . n A 1 32 ARG 32 32 32 ARG ARG A . n B 1 1 ALA 1 1 1 ALA ALA B . n B 1 2 THR 2 2 2 THR THR B . n B 1 3 CYS 3 3 3 CYS CYS B . n B 1 4 TYR 4 4 4 TYR TYR B . n B 1 5 CYS 5 5 5 CYS CYS B . n B 1 6 ARG 6 6 6 ARG ARG B . n B 1 7 THR 7 7 7 THR THR B . n B 1 8 GLY 8 8 8 GLY GLY B . n B 1 9 ARG 9 9 9 ARG ARG B . n B 1 10 CYS 10 10 10 CYS CYS B . n B 1 11 ALA 11 11 11 ALA ALA B . n B 1 12 THR 12 12 12 THR THR B . n B 1 13 ARG 13 13 13 ARG ARG B . n B 1 14 GLU 14 14 14 GLU GLU B . n B 1 15 SER 15 15 15 SER SER B . n B 1 16 LEU 16 16 16 LEU LEU B . n B 1 17 SER 17 17 17 SER SER B . n B 1 18 GLY 18 18 18 GLY GLY B . n B 1 19 VAL 19 19 19 VAL VAL B . n B 1 20 CYS 20 20 20 CYS CYS B . n B 1 21 EME 21 21 21 EME EME B . n B 1 22 ILE 22 22 22 ILE ILE B . n B 1 23 SER 23 23 23 SER SER B . n B 1 24 GLY 24 24 24 GLY GLY B . n B 1 25 ARG 25 25 25 ARG ARG B . n B 1 26 LEU 26 26 26 LEU LEU B . n B 1 27 TYR 27 27 27 TYR TYR B . n B 1 28 ARG 28 28 28 ARG ARG B . n B 1 29 LEU 29 29 29 LEU LEU B . n B 1 30 CYS 30 30 30 CYS CYS B . n B 1 31 CYS 31 31 31 CYS CYS B . n B 1 32 ARG 32 32 32 ARG ARG B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 HOH 1 101 2 HOH HOH A . C 2 HOH 2 102 5 HOH HOH A . C 2 HOH 3 103 6 HOH HOH A . C 2 HOH 4 104 8 HOH HOH A . C 2 HOH 5 105 9 HOH HOH A . C 2 HOH 6 106 11 HOH HOH A . C 2 HOH 7 107 12 HOH HOH A . C 2 HOH 8 108 18 HOH HOH A . C 2 HOH 9 109 20 HOH HOH A . C 2 HOH 10 110 23 HOH HOH A . C 2 HOH 11 111 24 HOH HOH A . C 2 HOH 12 112 25 HOH HOH A . C 2 HOH 13 113 26 HOH HOH A . C 2 HOH 14 114 27 HOH HOH A . C 2 HOH 15 115 29 HOH HOH A . C 2 HOH 16 116 31 HOH HOH A . C 2 HOH 17 117 34 HOH HOH A . C 2 HOH 18 118 39 HOH HOH A . C 2 HOH 19 119 43 HOH HOH A . C 2 HOH 20 120 45 HOH HOH A . C 2 HOH 21 121 46 HOH HOH A . C 2 HOH 22 122 48 HOH HOH A . C 2 HOH 23 123 50 HOH HOH A . C 2 HOH 24 124 51 HOH HOH A . C 2 HOH 25 125 52 HOH HOH A . C 2 HOH 26 126 53 HOH HOH A . D 2 HOH 1 101 41 HOH HOH B . D 2 HOH 2 102 1 HOH HOH B . D 2 HOH 3 103 3 HOH HOH B . D 2 HOH 4 104 4 HOH HOH B . D 2 HOH 5 105 7 HOH HOH B . D 2 HOH 6 106 10 HOH HOH B . D 2 HOH 7 107 13 HOH HOH B . D 2 HOH 8 108 14 HOH HOH B . D 2 HOH 9 109 15 HOH HOH B . D 2 HOH 10 110 16 HOH HOH B . D 2 HOH 11 111 17 HOH HOH B . D 2 HOH 12 112 19 HOH HOH B . D 2 HOH 13 113 21 HOH HOH B . D 2 HOH 14 114 22 HOH HOH B . D 2 HOH 15 115 28 HOH HOH B . D 2 HOH 16 116 30 HOH HOH B . D 2 HOH 17 117 32 HOH HOH B . D 2 HOH 18 118 33 HOH HOH B . D 2 HOH 19 119 35 HOH HOH B . D 2 HOH 20 120 36 HOH HOH B . D 2 HOH 21 121 37 HOH HOH B . D 2 HOH 22 122 38 HOH HOH B . D 2 HOH 23 123 40 HOH HOH B . D 2 HOH 24 124 42 HOH HOH B . D 2 HOH 25 125 47 HOH HOH B . D 2 HOH 26 126 49 HOH HOH B . D 2 HOH 27 127 54 HOH HOH B . D 2 HOH 28 128 55 HOH HOH B . D 2 HOH 29 129 56 HOH HOH B . # 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 EME 21 A EME 21 ? GLU 'N-METHYL-L-GLUTAMIC ACID' 2 B EME 21 B EME 21 ? GLU 'N-METHYL-L-GLUTAMIC 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 author_defined_assembly ? monomeric 1 2 author_defined_assembly ? monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,C 2 1 B,D # _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_ _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 2012-05-16 2 'Structure model' 1 1 2013-06-19 3 'Structure model' 1 2 2023-09-13 4 'Structure model' 2 0 2023-11-15 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Refinement description' 6 4 'Structure model' 'Atomic model' 7 4 'Structure model' 'Data collection' 8 4 'Structure model' 'Derived calculations' # 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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 'Structure model' struct_conn 6 3 'Structure model' struct_ncs_dom_lim 7 4 'Structure model' atom_site 8 4 'Structure model' atom_site_anisotrop 9 4 'Structure model' chem_comp_atom 10 4 'Structure model' chem_comp_bond 11 4 'Structure model' pdbx_validate_rmsd_bond 12 4 'Structure model' struct_conn # 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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_conn.pdbx_dist_value' 4 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 3 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 6 3 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 9 3 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 3 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 3 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 12 3 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 13 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 14 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 15 3 'Structure model' '_struct_conn.ptnr2_label_atom_id' 16 3 'Structure model' '_struct_conn.ptnr2_label_comp_id' 17 3 'Structure model' '_struct_conn.ptnr2_label_seq_id' 18 3 'Structure model' '_struct_ncs_dom_lim.beg_auth_comp_id' 19 3 'Structure model' '_struct_ncs_dom_lim.beg_label_asym_id' 20 3 'Structure model' '_struct_ncs_dom_lim.beg_label_comp_id' 21 3 'Structure model' '_struct_ncs_dom_lim.beg_label_seq_id' 22 3 'Structure model' '_struct_ncs_dom_lim.end_auth_comp_id' 23 3 'Structure model' '_struct_ncs_dom_lim.end_label_asym_id' 24 3 'Structure model' '_struct_ncs_dom_lim.end_label_comp_id' 25 3 'Structure model' '_struct_ncs_dom_lim.end_label_seq_id' 26 4 'Structure model' '_atom_site.auth_atom_id' 27 4 'Structure model' '_atom_site.label_atom_id' 28 4 'Structure model' '_atom_site_anisotrop.pdbx_auth_atom_id' 29 4 'Structure model' '_atom_site_anisotrop.pdbx_label_atom_id' 30 4 'Structure model' '_chem_comp_atom.atom_id' 31 4 'Structure model' '_chem_comp_bond.atom_id_1' 32 4 'Structure model' '_chem_comp_bond.atom_id_2' 33 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 34 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] 'X-RAY DIFFRACTION' 1 ? refined -11.1736 2.0383 8.5443 0.0229 0.0113 0.0073 0.0059 -0.0064 -0.0011 1.9117 3.6520 3.1511 -0.0371 0.1323 -1.5450 -0.0376 0.0040 0.0336 -0.0210 0.0881 -0.0017 0.0582 -0.1968 0.0238 'X-RAY DIFFRACTION' 2 ? refined -1.6044 -7.2588 9.1583 0.0169 0.0231 0.0071 0.0117 -0.0054 0.0029 2.2000 2.1963 2.4292 0.1978 0.3371 1.3113 -0.0511 0.0706 -0.0195 -0.0686 -0.0651 -0.0540 0.0861 0.0404 0.0591 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.selection_details _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection 'X-RAY DIFFRACTION' 1 1 A 1 A 32 ? . . . . ? 'X-RAY DIFFRACTION' 2 2 B 1 B 32 ? . . . . ? # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 REFMAC 5.6.0117 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 2 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 HKL-2000 . ? ? ? ? 'data collection' ? ? ? 4 DENZO . ? ? ? ? 'data reduction' ? ? ? 5 SCALEPACK . ? ? ? ? 'data scaling' ? ? ? 6 PHASER . ? ? ? ? phasing ? ? ? # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 NH1 B ARG 25 ? ? 1_555 O A HOH 114 ? ? 1_655 1.92 2 1 O A HOH 123 ? ? 1_555 O B HOH 127 ? ? 3_455 2.18 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 C A CYS 20 ? ? N A EME 21 ? ? 1.494 1.336 0.158 0.023 Y 2 1 C A EME 21 ? ? N A ILE 22 ? ? 1.482 1.336 0.146 0.023 Y # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 CYS N N N N 41 CYS CA C N R 42 CYS C C N N 43 CYS O O N N 44 CYS CB C N N 45 CYS SG S N N 46 CYS OXT O N N 47 CYS H H N N 48 CYS H2 H N N 49 CYS HA H N N 50 CYS HB2 H N N 51 CYS HB3 H N N 52 CYS HG H N N 53 CYS HXT H N N 54 EME C7 C N N 55 EME N N N N 56 EME CA C N S 57 EME C C N N 58 EME O O N N 59 EME CB C N N 60 EME CG C N N 61 EME CD C N N 62 EME OE2 O N N 63 EME OE1 O N N 64 EME OXT O N N 65 EME H1 H N N 66 EME H4 H N N 67 EME H3 H N N 68 EME H H N N 69 EME HA H N N 70 EME H7 H N N 71 EME H8 H N N 72 EME H9 H N N 73 EME H10 H N N 74 EME H11 H N N 75 EME HXT H N N 76 GLU N N N N 77 GLU CA C N S 78 GLU C C N N 79 GLU O O N N 80 GLU CB C N N 81 GLU CG C N N 82 GLU CD C N N 83 GLU OE1 O N N 84 GLU OE2 O N N 85 GLU OXT O N N 86 GLU H H N N 87 GLU H2 H N N 88 GLU HA H N N 89 GLU HB2 H N N 90 GLU HB3 H N N 91 GLU HG2 H N N 92 GLU HG3 H N N 93 GLU HE2 H N N 94 GLU HXT H N N 95 GLY N N N N 96 GLY CA C N N 97 GLY C C N N 98 GLY O O N N 99 GLY OXT O N N 100 GLY H H N N 101 GLY H2 H N N 102 GLY HA2 H N N 103 GLY HA3 H N N 104 GLY HXT H N N 105 HOH O O N N 106 HOH H1 H N N 107 HOH H2 H N N 108 ILE N N N N 109 ILE CA C N S 110 ILE C C N N 111 ILE O O N N 112 ILE CB C N S 113 ILE CG1 C N N 114 ILE CG2 C N N 115 ILE CD1 C N N 116 ILE OXT O N N 117 ILE H H N N 118 ILE H2 H N N 119 ILE HA H N N 120 ILE HB H N N 121 ILE HG12 H N N 122 ILE HG13 H N N 123 ILE HG21 H N N 124 ILE HG22 H N N 125 ILE HG23 H N N 126 ILE HD11 H N N 127 ILE HD12 H N N 128 ILE HD13 H N N 129 ILE HXT H N N 130 LEU N N N N 131 LEU CA C N S 132 LEU C C N N 133 LEU O O N N 134 LEU CB C N N 135 LEU CG C N N 136 LEU CD1 C N N 137 LEU CD2 C N N 138 LEU OXT O N N 139 LEU H H N N 140 LEU H2 H N N 141 LEU HA H N N 142 LEU HB2 H N N 143 LEU HB3 H N N 144 LEU HG H N N 145 LEU HD11 H N N 146 LEU HD12 H N N 147 LEU HD13 H N N 148 LEU HD21 H N N 149 LEU HD22 H N N 150 LEU HD23 H N N 151 LEU HXT H N N 152 SER N N N N 153 SER CA C N S 154 SER C C N N 155 SER O O N N 156 SER CB C N N 157 SER OG O N N 158 SER OXT O N N 159 SER H H N N 160 SER H2 H N N 161 SER HA H N N 162 SER HB2 H N N 163 SER HB3 H N N 164 SER HG H N N 165 SER HXT H N N 166 THR N N N N 167 THR CA C N S 168 THR C C N N 169 THR O O N N 170 THR CB C N R 171 THR OG1 O N N 172 THR CG2 C N N 173 THR OXT O N N 174 THR H H N N 175 THR H2 H N N 176 THR HA H N N 177 THR HB H N N 178 THR HG1 H N N 179 THR HG21 H N N 180 THR HG22 H N N 181 THR HG23 H N N 182 THR HXT H N N 183 TYR N N N N 184 TYR CA C N S 185 TYR C C N N 186 TYR O O N N 187 TYR CB C N N 188 TYR CG C Y N 189 TYR CD1 C Y N 190 TYR CD2 C Y N 191 TYR CE1 C Y N 192 TYR CE2 C Y N 193 TYR CZ C Y N 194 TYR OH O N N 195 TYR OXT O N N 196 TYR H H N N 197 TYR H2 H N N 198 TYR HA H N N 199 TYR HB2 H N N 200 TYR HB3 H N N 201 TYR HD1 H N N 202 TYR HD2 H N N 203 TYR HE1 H N N 204 TYR HE2 H N N 205 TYR HH H N N 206 TYR HXT H N N 207 VAL N N N N 208 VAL CA C N S 209 VAL C C N N 210 VAL O O N N 211 VAL CB C N N 212 VAL CG1 C N N 213 VAL CG2 C N N 214 VAL OXT O N N 215 VAL H H N N 216 VAL H2 H N N 217 VAL HA H N N 218 VAL HB H N N 219 VAL HG11 H N N 220 VAL HG12 H N N 221 VAL HG13 H N N 222 VAL HG21 H N N 223 VAL HG22 H N N 224 VAL HG23 H N N 225 VAL HXT H N N 226 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 CYS N CA sing N N 39 CYS N H sing N N 40 CYS N H2 sing N N 41 CYS CA C sing N N 42 CYS CA CB sing N N 43 CYS CA HA sing N N 44 CYS C O doub N N 45 CYS C OXT sing N N 46 CYS CB SG sing N N 47 CYS CB HB2 sing N N 48 CYS CB HB3 sing N N 49 CYS SG HG sing N N 50 CYS OXT HXT sing N N 51 EME C7 N sing N N 52 EME N CA sing N N 53 EME CB CA sing N N 54 EME CB CG sing N N 55 EME CA C sing N N 56 EME OE2 CD doub N N 57 EME O C doub N N 58 EME CD CG sing N N 59 EME CD OE1 sing N N 60 EME C OXT sing N N 61 EME C7 H1 sing N N 62 EME C7 H4 sing N N 63 EME C7 H3 sing N N 64 EME N H sing N N 65 EME CA HA sing N N 66 EME CB H7 sing N N 67 EME CB H8 sing N N 68 EME CG H9 sing N N 69 EME CG H10 sing N N 70 EME OE1 H11 sing N N 71 EME OXT HXT sing N N 72 GLU N CA sing N N 73 GLU N H sing N N 74 GLU N H2 sing N N 75 GLU CA C sing N N 76 GLU CA CB sing N N 77 GLU CA HA sing N N 78 GLU C O doub N N 79 GLU C OXT sing N N 80 GLU CB CG sing N N 81 GLU CB HB2 sing N N 82 GLU CB HB3 sing N N 83 GLU CG CD sing N N 84 GLU CG HG2 sing N N 85 GLU CG HG3 sing N N 86 GLU CD OE1 doub N N 87 GLU CD OE2 sing N N 88 GLU OE2 HE2 sing N N 89 GLU OXT HXT sing N N 90 GLY N CA sing N N 91 GLY N H sing N N 92 GLY N H2 sing N N 93 GLY CA C sing N N 94 GLY CA HA2 sing N N 95 GLY CA HA3 sing N N 96 GLY C O doub N N 97 GLY C OXT sing N N 98 GLY OXT HXT sing N N 99 HOH O H1 sing N N 100 HOH O H2 sing N N 101 ILE N CA sing N N 102 ILE N H sing N N 103 ILE N H2 sing N N 104 ILE CA C sing N N 105 ILE CA CB sing N N 106 ILE CA HA sing N N 107 ILE C O doub N N 108 ILE C OXT sing N N 109 ILE CB CG1 sing N N 110 ILE CB CG2 sing N N 111 ILE CB HB sing N N 112 ILE CG1 CD1 sing N N 113 ILE CG1 HG12 sing N N 114 ILE CG1 HG13 sing N N 115 ILE CG2 HG21 sing N N 116 ILE CG2 HG22 sing N N 117 ILE CG2 HG23 sing N N 118 ILE CD1 HD11 sing N N 119 ILE CD1 HD12 sing N N 120 ILE CD1 HD13 sing N N 121 ILE OXT HXT sing N N 122 LEU N CA sing N N 123 LEU N H sing N N 124 LEU N H2 sing N N 125 LEU CA C sing N N 126 LEU CA CB sing N N 127 LEU CA HA sing N N 128 LEU C O doub N N 129 LEU C OXT sing N N 130 LEU CB CG sing N N 131 LEU CB HB2 sing N N 132 LEU CB HB3 sing N N 133 LEU CG CD1 sing N N 134 LEU CG CD2 sing N N 135 LEU CG HG sing N N 136 LEU CD1 HD11 sing N N 137 LEU CD1 HD12 sing N N 138 LEU CD1 HD13 sing N N 139 LEU CD2 HD21 sing N N 140 LEU CD2 HD22 sing N N 141 LEU CD2 HD23 sing N N 142 LEU OXT HXT sing N N 143 SER N CA sing N N 144 SER N H sing N N 145 SER N H2 sing N N 146 SER CA C sing N N 147 SER CA CB sing N N 148 SER CA HA sing N N 149 SER C O doub N N 150 SER C OXT sing N N 151 SER CB OG sing N N 152 SER CB HB2 sing N N 153 SER CB HB3 sing N N 154 SER OG HG sing N N 155 SER OXT HXT sing N N 156 THR N CA sing N N 157 THR N H sing N N 158 THR N H2 sing N N 159 THR CA C sing N N 160 THR CA CB sing N N 161 THR CA HA sing N N 162 THR C O doub N N 163 THR C OXT sing N N 164 THR CB OG1 sing N N 165 THR CB CG2 sing N N 166 THR CB HB sing N N 167 THR OG1 HG1 sing N N 168 THR CG2 HG21 sing N N 169 THR CG2 HG22 sing N N 170 THR CG2 HG23 sing N N 171 THR OXT HXT sing N N 172 TYR N CA sing N N 173 TYR N H sing N N 174 TYR N H2 sing N N 175 TYR CA C sing N N 176 TYR CA CB sing N N 177 TYR CA HA sing N N 178 TYR C O doub N N 179 TYR C OXT sing N N 180 TYR CB CG sing N N 181 TYR CB HB2 sing N N 182 TYR CB HB3 sing N N 183 TYR CG CD1 doub Y N 184 TYR CG CD2 sing Y N 185 TYR CD1 CE1 sing Y N 186 TYR CD1 HD1 sing N N 187 TYR CD2 CE2 doub Y N 188 TYR CD2 HD2 sing N N 189 TYR CE1 CZ doub Y N 190 TYR CE1 HE1 sing N N 191 TYR CE2 CZ sing Y N 192 TYR CE2 HE2 sing N N 193 TYR CZ OH sing N N 194 TYR OH HH sing N N 195 TYR OXT HXT sing N N 196 VAL N CA sing N N 197 VAL N H sing N N 198 VAL N H2 sing N N 199 VAL CA C sing N N 200 VAL CA CB sing N N 201 VAL CA HA sing N N 202 VAL C O doub N N 203 VAL C OXT sing N N 204 VAL CB CG1 sing N N 205 VAL CB CG2 sing N N 206 VAL CB HB sing N N 207 VAL CG1 HG11 sing N N 208 VAL CG1 HG12 sing N N 209 VAL CG1 HG13 sing N N 210 VAL CG2 HG21 sing N N 211 VAL CG2 HG22 sing N N 212 VAL CG2 HG23 sing N N 213 VAL OXT HXT sing N N 214 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 1ZMP _pdbx_initial_refinement_model.details 'PDB ENTRY 1ZMP' #