data_3V3L # _entry.id 3V3L # _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 3V3L RCSB RCSB069551 WWPDB D_1000069551 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3V3L _pdbx_database_status.recvd_initial_deposition_date 2011-12-13 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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 'Wang, Z.' 1 'Cheng, Z.' 2 'Xu, W.' 3 # _citation.id primary _citation.title ;Recognition of the iso-ADP-ribose moiety in poly(ADP-ribose) by WWE domains suggests a general mechanism for poly(ADP-ribosyl)ation-dependent ubiquitination. ; _citation.journal_abbrev 'Genes Dev.' _citation.journal_volume 26 _citation.page_first 235 _citation.page_last 240 _citation.year 2012 _citation.journal_id_ASTM GEDEEP _citation.country US _citation.journal_id_ISSN 0890-9369 _citation.journal_id_CSD 2056 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22267412 _citation.pdbx_database_id_DOI 10.1101/gad.182618.111 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Wang, Z.' 1 primary 'Michaud, G.A.' 2 primary 'Cheng, Z.' 3 primary 'Zhang, Y.' 4 primary 'Hinds, T.R.' 5 primary 'Fan, E.' 6 primary 'Cong, F.' 7 primary 'Xu, W.' 8 # _cell.entry_id 3V3L _cell.length_a 55.343 _cell.length_b 55.343 _cell.length_c 146.471 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _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.entry_id 3V3L _symmetry.space_group_name_H-M 'P 31 1 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 151 _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 man 'E3 ubiquitin-protein ligase RNF146' 10255.229 2 6.3.2.- ? 'WWE domain residues 100-184' ? 2 non-polymer syn ;2'-O-(5-O-phosphono-alpha-D-ribofuranosyl)adenosine 5'-(dihydrogen phosphate) ; 559.316 2 ? ? ? ? 3 water nat water 18.015 124 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Dactylidin, RING finger protein 146' # _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 ;GNGEYAWYYEGRNGWWQYDERTSRELEDAFSKGKKNTE(MSE)LIAGFLYVADLEN(MSE)VQYRRNEHGRRRKIKRDII DIPKKGVAGLRLD ; _entity_poly.pdbx_seq_one_letter_code_can ;GNGEYAWYYEGRNGWWQYDERTSRELEDAFSKGKKNTEMLIAGFLYVADLENMVQYRRNEHGRRRKIKRDIIDIPKKGVA GLRLD ; _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 GLY n 1 2 ASN n 1 3 GLY n 1 4 GLU n 1 5 TYR n 1 6 ALA n 1 7 TRP n 1 8 TYR n 1 9 TYR n 1 10 GLU n 1 11 GLY n 1 12 ARG n 1 13 ASN n 1 14 GLY n 1 15 TRP n 1 16 TRP n 1 17 GLN n 1 18 TYR n 1 19 ASP n 1 20 GLU n 1 21 ARG n 1 22 THR n 1 23 SER n 1 24 ARG n 1 25 GLU n 1 26 LEU n 1 27 GLU n 1 28 ASP n 1 29 ALA n 1 30 PHE n 1 31 SER n 1 32 LYS n 1 33 GLY n 1 34 LYS n 1 35 LYS n 1 36 ASN n 1 37 THR n 1 38 GLU n 1 39 MSE n 1 40 LEU n 1 41 ILE n 1 42 ALA n 1 43 GLY n 1 44 PHE n 1 45 LEU n 1 46 TYR n 1 47 VAL n 1 48 ALA n 1 49 ASP n 1 50 LEU n 1 51 GLU n 1 52 ASN n 1 53 MSE n 1 54 VAL n 1 55 GLN n 1 56 TYR n 1 57 ARG n 1 58 ARG n 1 59 ASN n 1 60 GLU n 1 61 HIS n 1 62 GLY n 1 63 ARG n 1 64 ARG n 1 65 ARG n 1 66 LYS n 1 67 ILE n 1 68 LYS n 1 69 ARG n 1 70 ASP n 1 71 ILE n 1 72 ILE n 1 73 ASP n 1 74 ILE n 1 75 PRO n 1 76 LYS n 1 77 LYS n 1 78 GLY n 1 79 VAL n 1 80 ALA n 1 81 GLY n 1 82 LEU n 1 83 ARG n 1 84 LEU n 1 85 ASP n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene RNF146 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code RN146_HUMAN _struct_ref.pdbx_db_accession Q9NTX7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;GNGEYAWYYEGRNGWWQYDERTSRELEDAFSKGKKNTEMLIAGFLYVADLENMVQYRRNEHGRRRKIKRDIIDIPKKGVA GLRLD ; _struct_ref.pdbx_align_begin 100 _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 3V3L A 1 ? 85 ? Q9NTX7 100 ? 184 ? 99 183 2 1 3V3L B 1 ? 85 ? Q9NTX7 100 ? 184 ? 99 183 # 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 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 V3L 'RNA linking' n ;2'-O-(5-O-phosphono-alpha-D-ribofuranosyl)adenosine 5'-(dihydrogen phosphate) ; ? 'C15 H23 N5 O14 P2' 559.316 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3V3L _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.16 _exptl_crystal.density_percent_sol 61.04 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 295 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '45% PEG 400, 100 mM Tris HCl pH 8.0, 10 mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 295K' # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2011-04-21 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'DOUBLE CRYSTAL, SI(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9793 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_wavelength 0.9793 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 3V3L _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 20.000 _reflns.d_resolution_high 1.630 _reflns.number_obs 32399 _reflns.number_all ? _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _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_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.63 _reflns_shell.d_res_low 1.68 _reflns_shell.percent_possible_all 96.0 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _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 ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3V3L _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 29606 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 1.65 _refine.ls_percent_reflns_obs 99.5 _refine.ls_R_factor_obs 0.153 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.151 _refine.ls_R_factor_R_free 0.181 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 1575 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.972 _refine.correlation_coeff_Fo_to_Fc_free 0.962 _refine.B_iso_mean 32.28 _refine.aniso_B[1][1] -0.95000 _refine.aniso_B[2][2] -0.95000 _refine.aniso_B[3][3] 1.42000 _refine.aniso_B[1][2] -0.47000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.089 _refine.pdbx_overall_ESU_R_Free 0.074 _refine.overall_SU_ML 0.050 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 3.309 _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1422 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 72 _refine_hist.number_atoms_solvent 124 _refine_hist.number_atoms_total 1618 _refine_hist.d_res_high 1.65 _refine_hist.d_res_low 20.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.012 0.021 ? 1648 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 1176 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.573 1.994 ? 2245 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.815 3.000 ? 2813 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.784 5.000 ? 192 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 31.121 22.660 ? 94 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 15.766 15.000 ? 291 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 16.471 15.000 ? 22 'X-RAY DIFFRACTION' ? r_chiral_restr 0.084 0.200 ? 215 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.005 0.020 ? 1866 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.002 0.020 ? 392 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 3.406 4.000 ? 898 'X-RAY DIFFRACTION' ? r_mcbond_other 1.390 4.000 ? 372 'X-RAY DIFFRACTION' ? r_mcangle_it 5.280 6.000 ? 1443 'X-RAY DIFFRACTION' ? r_scbond_it 5.782 6.000 ? 750 'X-RAY DIFFRACTION' ? r_scangle_it 8.227 10.000 ? 800 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 1.795 3.000 ? 2824 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.65 _refine_ls_shell.d_res_low 1.69 _refine_ls_shell.number_reflns_R_work 2059 _refine_ls_shell.R_factor_R_work 0.1820 _refine_ls_shell.percent_reflns_obs 97.20 _refine_ls_shell.R_factor_R_free 0.2160 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 130 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 3V3L _struct.title 'Crystal structure of human RNF146 WWE domain in complex with iso-ADPRibose' _struct.pdbx_descriptor 'E3 ubiquitin-protein ligase RNF146 (E.C.6.3.2.-)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3V3L _struct_keywords.pdbx_keywords LIGASE _struct_keywords.text ligase # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 ASP A 19 ? LYS A 32 ? ASP A 117 LYS A 130 1 ? 14 HELX_P HELX_P2 2 ASP B 19 ? LYS B 32 ? ASP B 117 LYS B 130 1 ? 14 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? A GLU 38 C ? ? ? 1_555 A MSE 39 N ? ? A GLU 136 A MSE 137 1_555 ? ? ? ? ? ? ? 1.328 ? covale2 covale ? ? A MSE 39 C ? ? ? 1_555 A LEU 40 N ? ? A MSE 137 A LEU 138 1_555 ? ? ? ? ? ? ? 1.334 ? covale3 covale ? ? A ASN 52 C ? ? ? 1_555 A MSE 53 N ? ? A ASN 150 A MSE 151 1_555 ? ? ? ? ? ? ? 1.331 ? covale4 covale ? ? A MSE 53 C ? ? ? 1_555 A VAL 54 N ? ? A MSE 151 A VAL 152 1_555 ? ? ? ? ? ? ? 1.331 ? covale5 covale ? ? B GLU 38 C ? ? ? 1_555 B MSE 39 N ? ? B GLU 136 B MSE 137 1_555 ? ? ? ? ? ? ? 1.320 ? covale6 covale ? ? B MSE 39 C ? ? ? 1_555 B LEU 40 N A ? B MSE 137 B LEU 138 1_555 ? ? ? ? ? ? ? 1.331 ? covale7 covale ? ? B MSE 39 C ? ? ? 1_555 B LEU 40 N B ? B MSE 137 B LEU 138 1_555 ? ? ? ? ? ? ? 1.331 ? covale8 covale ? ? B ASN 52 C ? ? ? 1_555 B MSE 53 N ? ? B ASN 150 B MSE 151 1_555 ? ? ? ? ? ? ? 1.334 ? covale9 covale ? ? B MSE 53 C ? ? ? 1_555 B VAL 54 N ? ? B MSE 151 B VAL 152 1_555 ? ? ? ? ? ? ? 1.327 ? # _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 ? 6 ? B ? 2 ? C ? 6 ? D ? 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 A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel C 4 5 ? anti-parallel C 5 6 ? anti-parallel D 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 TRP A 15 ? GLN A 17 ? TRP A 113 GLN A 115 A 2 TYR A 5 ? GLU A 10 ? TYR A 103 GLU A 108 A 3 ARG A 65 ? ILE A 71 ? ARG A 163 ILE A 169 A 4 VAL A 54 ? ARG A 57 ? VAL A 152 ARG A 155 A 5 PHE A 44 ? ASP A 49 ? PHE A 142 ASP A 147 A 6 ASN A 36 ? ILE A 41 ? ASN A 134 ILE A 139 B 1 GLY A 78 ? VAL A 79 ? GLY A 176 VAL A 177 B 2 LEU A 82 ? ARG A 83 ? LEU A 180 ARG A 181 C 1 GLY B 14 ? GLN B 17 ? GLY B 112 GLN B 115 C 2 TYR B 5 ? GLY B 11 ? TYR B 103 GLY B 109 C 3 ARG B 65 ? ILE B 71 ? ARG B 163 ILE B 169 C 4 VAL B 54 ? ARG B 57 ? VAL B 152 ARG B 155 C 5 PHE B 44 ? ASP B 49 ? PHE B 142 ASP B 147 C 6 ASN B 36 ? ILE B 41 ? ASN B 134 ILE B 139 D 1 GLY B 78 ? VAL B 79 ? GLY B 176 VAL B 177 D 2 LEU B 82 ? ARG B 83 ? LEU B 180 ARG B 181 # 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 O TRP A 16 ? O TRP A 114 N TYR A 9 ? N TYR A 107 A 2 3 N TYR A 8 ? N TYR A 106 O LYS A 68 ? O LYS A 166 A 3 4 O ARG A 65 ? O ARG A 163 N GLN A 55 ? N GLN A 153 A 4 5 O VAL A 54 ? O VAL A 152 N ASP A 49 ? N ASP A 147 A 5 6 O PHE A 44 ? O PHE A 142 N ILE A 41 ? N ILE A 139 B 1 2 N VAL A 79 ? N VAL A 177 O LEU A 82 ? O LEU A 180 C 1 2 O GLY B 14 ? O GLY B 112 N GLY B 11 ? N GLY B 109 C 2 3 N ALA B 6 ? N ALA B 104 O ASP B 70 ? O ASP B 168 C 3 4 O ARG B 65 ? O ARG B 163 N GLN B 55 ? N GLN B 153 C 4 5 O VAL B 54 ? O VAL B 152 N ASP B 49 ? N ASP B 147 C 5 6 O PHE B 44 ? O PHE B 142 N ILE B 41 ? N ILE B 139 D 1 2 N VAL B 79 ? N VAL B 177 O LEU B 82 ? O LEU B 180 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 25 'BINDING SITE FOR RESIDUE V3L A 1' AC2 Software ? ? ? ? 26 'BINDING SITE FOR RESIDUE V3L B 1' # 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 25 HOH E . ? HOH A 3 . ? 1_555 ? 2 AC1 25 HOH E . ? HOH A 7 . ? 1_555 ? 3 AC1 25 HOH E . ? HOH A 9 . ? 1_555 ? 4 AC1 25 HOH E . ? HOH A 10 . ? 1_555 ? 5 AC1 25 HOH E . ? HOH A 14 . ? 1_555 ? 6 AC1 25 HOH E . ? HOH A 15 . ? 1_555 ? 7 AC1 25 HOH E . ? HOH A 16 . ? 1_555 ? 8 AC1 25 HOH E . ? HOH A 22 . ? 1_555 ? 9 AC1 25 TYR A 9 ? TYR A 107 . ? 1_555 ? 10 AC1 25 GLY A 11 ? GLY A 109 . ? 1_555 ? 11 AC1 25 ARG A 12 ? ARG A 110 . ? 1_555 ? 12 AC1 25 TRP A 16 ? TRP A 114 . ? 1_555 ? 13 AC1 25 TYR A 18 ? TYR A 116 . ? 1_555 ? 14 AC1 25 ILE A 41 ? ILE A 139 . ? 1_555 ? 15 AC1 25 TYR A 46 ? TYR A 144 . ? 1_555 ? 16 AC1 25 GLN A 55 ? GLN A 153 . ? 1_555 ? 17 AC1 25 ARG A 63 ? ARG A 161 . ? 1_555 ? 18 AC1 25 ARG A 65 ? ARG A 163 . ? 1_555 ? 19 AC1 25 LYS A 77 ? LYS A 175 . ? 1_555 ? 20 AC1 25 GLY A 81 ? GLY A 179 . ? 1_555 ? 21 AC1 25 HOH E . ? HOH A 184 . ? 1_555 ? 22 AC1 25 HOH E . ? HOH A 190 . ? 1_555 ? 23 AC1 25 V3L D . ? V3L B 1 . ? 1_555 ? 24 AC1 25 ARG B 12 ? ARG B 110 . ? 1_555 ? 25 AC1 25 ARG B 63 ? ARG B 161 . ? 1_555 ? 26 AC2 26 V3L C . ? V3L A 1 . ? 1_555 ? 27 AC2 26 ARG A 12 ? ARG A 110 . ? 1_555 ? 28 AC2 26 ARG A 63 ? ARG A 161 . ? 1_555 ? 29 AC2 26 HOH E . ? HOH A 184 . ? 1_555 ? 30 AC2 26 HOH E . ? HOH A 207 . ? 1_555 ? 31 AC2 26 HOH F . ? HOH B 4 . ? 1_555 ? 32 AC2 26 HOH F . ? HOH B 5 . ? 1_555 ? 33 AC2 26 HOH F . ? HOH B 6 . ? 1_555 ? 34 AC2 26 HOH F . ? HOH B 11 . ? 1_555 ? 35 AC2 26 HOH F . ? HOH B 25 . ? 1_555 ? 36 AC2 26 HOH F . ? HOH B 31 . ? 1_555 ? 37 AC2 26 HOH F . ? HOH B 34 . ? 1_555 ? 38 AC2 26 HOH F . ? HOH B 96 . ? 1_555 ? 39 AC2 26 TYR B 9 ? TYR B 107 . ? 1_555 ? 40 AC2 26 GLY B 11 ? GLY B 109 . ? 1_555 ? 41 AC2 26 ARG B 12 ? ARG B 110 . ? 1_555 ? 42 AC2 26 TRP B 16 ? TRP B 114 . ? 1_555 ? 43 AC2 26 TYR B 18 ? TYR B 116 . ? 1_555 ? 44 AC2 26 ILE B 41 ? ILE B 139 . ? 1_555 ? 45 AC2 26 TYR B 46 ? TYR B 144 . ? 1_555 ? 46 AC2 26 GLN B 55 ? GLN B 153 . ? 1_555 ? 47 AC2 26 ARG B 63 ? ARG B 161 . ? 1_555 ? 48 AC2 26 ARG B 65 ? ARG B 163 . ? 1_555 ? 49 AC2 26 LYS B 77 ? LYS B 175 . ? 1_555 ? 50 AC2 26 GLY B 81 ? GLY B 179 . ? 1_555 ? 51 AC2 26 HOH F . ? HOH B 188 . ? 1_555 ? # _database_PDB_matrix.entry_id 3V3L _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3V3L _atom_sites.fract_transf_matrix[1][1] 0.018069 _atom_sites.fract_transf_matrix[1][2] 0.010432 _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] 0.020864 _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] 0.006827 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P SE # 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 GLY 1 99 ? ? ? A . n A 1 2 ASN 2 100 ? ? ? A . n A 1 3 GLY 3 101 101 GLY ALA A . n A 1 4 GLU 4 102 102 GLU GLU A . n A 1 5 TYR 5 103 103 TYR TYR A . n A 1 6 ALA 6 104 104 ALA ALA A . n A 1 7 TRP 7 105 105 TRP TRP A . n A 1 8 TYR 8 106 106 TYR TYR A . n A 1 9 TYR 9 107 107 TYR TYR A . n A 1 10 GLU 10 108 108 GLU GLU A . n A 1 11 GLY 11 109 109 GLY GLY A . n A 1 12 ARG 12 110 110 ARG ARG A . n A 1 13 ASN 13 111 111 ASN ASN A . n A 1 14 GLY 14 112 112 GLY GLY A . n A 1 15 TRP 15 113 113 TRP TRP A . n A 1 16 TRP 16 114 114 TRP TRP A . n A 1 17 GLN 17 115 115 GLN GLN A . n A 1 18 TYR 18 116 116 TYR TYR A . n A 1 19 ASP 19 117 117 ASP ASP A . n A 1 20 GLU 20 118 118 GLU GLU A . n A 1 21 ARG 21 119 119 ARG ARG A . n A 1 22 THR 22 120 120 THR THR A . n A 1 23 SER 23 121 121 SER SER A . n A 1 24 ARG 24 122 122 ARG ARG A . n A 1 25 GLU 25 123 123 GLU GLU A . n A 1 26 LEU 26 124 124 LEU LEU A . n A 1 27 GLU 27 125 125 GLU GLU A . n A 1 28 ASP 28 126 126 ASP ASP A . n A 1 29 ALA 29 127 127 ALA ALA A . n A 1 30 PHE 30 128 128 PHE PHE A . n A 1 31 SER 31 129 129 SER SER A . n A 1 32 LYS 32 130 130 LYS LYS A . n A 1 33 GLY 33 131 131 GLY GLY A . n A 1 34 LYS 34 132 132 LYS LYS A . n A 1 35 LYS 35 133 133 LYS LYS A . n A 1 36 ASN 36 134 134 ASN ASN A . n A 1 37 THR 37 135 135 THR THR A . n A 1 38 GLU 38 136 136 GLU GLU A . n A 1 39 MSE 39 137 137 MSE MSE A . n A 1 40 LEU 40 138 138 LEU LEU A . n A 1 41 ILE 41 139 139 ILE ILE A . n A 1 42 ALA 42 140 140 ALA ALA A . n A 1 43 GLY 43 141 141 GLY GLY A . n A 1 44 PHE 44 142 142 PHE PHE A . n A 1 45 LEU 45 143 143 LEU LEU A . n A 1 46 TYR 46 144 144 TYR TYR A . n A 1 47 VAL 47 145 145 VAL VAL A . n A 1 48 ALA 48 146 146 ALA ALA A . n A 1 49 ASP 49 147 147 ASP ASP A . n A 1 50 LEU 50 148 148 LEU LEU A . n A 1 51 GLU 51 149 149 GLU GLU A . n A 1 52 ASN 52 150 150 ASN ASN A . n A 1 53 MSE 53 151 151 MSE MSE A . n A 1 54 VAL 54 152 152 VAL VAL A . n A 1 55 GLN 55 153 153 GLN GLN A . n A 1 56 TYR 56 154 154 TYR TYR A . n A 1 57 ARG 57 155 155 ARG ARG A . n A 1 58 ARG 58 156 156 ARG ARG A . n A 1 59 ASN 59 157 157 ASN ASN A . n A 1 60 GLU 60 158 158 GLU GLU A . n A 1 61 HIS 61 159 159 HIS HIS A . n A 1 62 GLY 62 160 160 GLY GLY A . n A 1 63 ARG 63 161 161 ARG ARG A . n A 1 64 ARG 64 162 162 ARG ARG A . n A 1 65 ARG 65 163 163 ARG ARG A . n A 1 66 LYS 66 164 164 LYS LYS A . n A 1 67 ILE 67 165 165 ILE ILE A . n A 1 68 LYS 68 166 166 LYS LYS A . n A 1 69 ARG 69 167 167 ARG ARG A . n A 1 70 ASP 70 168 168 ASP ASP A . n A 1 71 ILE 71 169 169 ILE ILE A . n A 1 72 ILE 72 170 170 ILE ILE A . n A 1 73 ASP 73 171 171 ASP ASP A . n A 1 74 ILE 74 172 172 ILE ILE A . n A 1 75 PRO 75 173 173 PRO PRO A . n A 1 76 LYS 76 174 174 LYS LYS A . n A 1 77 LYS 77 175 175 LYS LYS A . n A 1 78 GLY 78 176 176 GLY GLY A . n A 1 79 VAL 79 177 177 VAL VAL A . n A 1 80 ALA 80 178 178 ALA ALA A . n A 1 81 GLY 81 179 179 GLY GLY A . n A 1 82 LEU 82 180 180 LEU LEU A . n A 1 83 ARG 83 181 181 ARG ARG A . n A 1 84 LEU 84 182 182 LEU LEU A . n A 1 85 ASP 85 183 183 ASP ASP A . n B 1 1 GLY 1 99 99 GLY GLY B . n B 1 2 ASN 2 100 100 ASN ASN B . n B 1 3 GLY 3 101 101 GLY GLY B . n B 1 4 GLU 4 102 102 GLU GLU B . n B 1 5 TYR 5 103 103 TYR TYR B . n B 1 6 ALA 6 104 104 ALA ALA B . n B 1 7 TRP 7 105 105 TRP TRP B . n B 1 8 TYR 8 106 106 TYR TYR B . n B 1 9 TYR 9 107 107 TYR TYR B . n B 1 10 GLU 10 108 108 GLU GLU B . n B 1 11 GLY 11 109 109 GLY GLY B . n B 1 12 ARG 12 110 110 ARG ARG B . n B 1 13 ASN 13 111 111 ASN ASN B . n B 1 14 GLY 14 112 112 GLY GLY B . n B 1 15 TRP 15 113 113 TRP TRP B . n B 1 16 TRP 16 114 114 TRP TRP B . n B 1 17 GLN 17 115 115 GLN GLN B . n B 1 18 TYR 18 116 116 TYR TYR B . n B 1 19 ASP 19 117 117 ASP ASP B . n B 1 20 GLU 20 118 118 GLU GLU B . n B 1 21 ARG 21 119 119 ARG ARG B . n B 1 22 THR 22 120 120 THR THR B . n B 1 23 SER 23 121 121 SER SER B . n B 1 24 ARG 24 122 122 ARG ARG B . n B 1 25 GLU 25 123 123 GLU GLU B . n B 1 26 LEU 26 124 124 LEU LEU B . n B 1 27 GLU 27 125 125 GLU GLU B . n B 1 28 ASP 28 126 126 ASP ASP B . n B 1 29 ALA 29 127 127 ALA ALA B . n B 1 30 PHE 30 128 128 PHE PHE B . n B 1 31 SER 31 129 129 SER SER B . n B 1 32 LYS 32 130 130 LYS LYS B . n B 1 33 GLY 33 131 131 GLY GLY B . n B 1 34 LYS 34 132 132 LYS LYS B . n B 1 35 LYS 35 133 133 LYS LYS B . n B 1 36 ASN 36 134 134 ASN ASN B . n B 1 37 THR 37 135 135 THR THR B . n B 1 38 GLU 38 136 136 GLU GLU B . n B 1 39 MSE 39 137 137 MSE MSE B . n B 1 40 LEU 40 138 138 LEU LEU B . n B 1 41 ILE 41 139 139 ILE ILE B . n B 1 42 ALA 42 140 140 ALA ALA B . n B 1 43 GLY 43 141 141 GLY GLY B . n B 1 44 PHE 44 142 142 PHE PHE B . n B 1 45 LEU 45 143 143 LEU LEU B . n B 1 46 TYR 46 144 144 TYR TYR B . n B 1 47 VAL 47 145 145 VAL VAL B . n B 1 48 ALA 48 146 146 ALA ALA B . n B 1 49 ASP 49 147 147 ASP ASP B . n B 1 50 LEU 50 148 148 LEU LEU B . n B 1 51 GLU 51 149 149 GLU GLU B . n B 1 52 ASN 52 150 150 ASN ASN B . n B 1 53 MSE 53 151 151 MSE MSE B . n B 1 54 VAL 54 152 152 VAL VAL B . n B 1 55 GLN 55 153 153 GLN GLN B . n B 1 56 TYR 56 154 154 TYR TYR B . n B 1 57 ARG 57 155 155 ARG ARG B . n B 1 58 ARG 58 156 156 ARG ARG B . n B 1 59 ASN 59 157 157 ASN ASN B . n B 1 60 GLU 60 158 158 GLU GLU B . n B 1 61 HIS 61 159 159 HIS HIS B . n B 1 62 GLY 62 160 160 GLY GLY B . n B 1 63 ARG 63 161 161 ARG ARG B . n B 1 64 ARG 64 162 162 ARG ARG B . n B 1 65 ARG 65 163 163 ARG ARG B . n B 1 66 LYS 66 164 164 LYS LYS B . n B 1 67 ILE 67 165 165 ILE ILE B . n B 1 68 LYS 68 166 166 LYS LYS B . n B 1 69 ARG 69 167 167 ARG ARG B . n B 1 70 ASP 70 168 168 ASP ASP B . n B 1 71 ILE 71 169 169 ILE ILE B . n B 1 72 ILE 72 170 170 ILE ILE B . n B 1 73 ASP 73 171 171 ASP ASP B . n B 1 74 ILE 74 172 172 ILE ILE B . n B 1 75 PRO 75 173 173 PRO PRO B . n B 1 76 LYS 76 174 174 LYS LYS B . n B 1 77 LYS 77 175 175 LYS LYS B . n B 1 78 GLY 78 176 176 GLY GLY B . n B 1 79 VAL 79 177 177 VAL VAL B . n B 1 80 ALA 80 178 178 ALA ALA B . n B 1 81 GLY 81 179 179 GLY GLY B . n B 1 82 LEU 82 180 180 LEU LEU B . n B 1 83 ARG 83 181 181 ARG ARG B . n B 1 84 LEU 84 182 182 LEU LEU B . n B 1 85 ASP 85 183 183 ASP ASP B . 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 MSE 39 A MSE 137 ? MET SELENOMETHIONINE 2 A MSE 53 A MSE 151 ? MET SELENOMETHIONINE 3 B MSE 39 B MSE 137 ? MET SELENOMETHIONINE 4 B MSE 53 B MSE 151 ? MET SELENOMETHIONINE # 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_and_software_defined_assembly PISA monomeric 1 2 author_and_software_defined_assembly PISA 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,E 2 1 B,D,F # _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_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 91 ? E HOH . 2 1 A HOH 188 ? E HOH . 3 1 B HOH 184 ? F HOH . 4 1 B HOH 196 ? F HOH . # _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 2012-02-15 # _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 ? # 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[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 27.0265 64.8351 83.9710 0.0212 0.0088 0.0064 -0.0045 0.0018 -0.0046 0.4236 0.7695 1.0770 0.2975 -0.0120 -0.2741 -0.0473 0.0416 -0.0001 -0.0615 0.0245 -0.0045 -0.0203 -0.0013 0.0228 'X-RAY DIFFRACTION' 2 ? refined 13.8772 41.7574 86.3183 0.0255 0.0182 0.0074 -0.0164 0.0062 -0.0077 0.5410 0.9528 0.8447 0.1592 -0.4700 0.0874 0.0506 -0.0204 0.0124 0.1131 -0.0733 0.0465 0.0185 -0.0234 0.0227 # 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.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 101 ? ? A 183 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 B 99 ? ? B 183 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 SOLVE phasing . ? 2 REFMAC refinement 5.0 ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 OD2 _pdbx_validate_close_contact.auth_asym_id_1 B _pdbx_validate_close_contact.auth_comp_id_1 ASP _pdbx_validate_close_contact.auth_seq_id_1 126 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 B _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 B _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 187 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.07 # 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 O B HOH 30 ? ? 1_555 O B HOH 185 ? ? 6_566 1.89 2 1 O B HOH 63 ? ? 1_555 O B HOH 79 ? ? 6_566 2.11 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CG _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 MSE _pdbx_validate_rmsd_angle.auth_seq_id_1 137 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 SE _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 MSE _pdbx_validate_rmsd_angle.auth_seq_id_2 137 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 CE _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 MSE _pdbx_validate_rmsd_angle.auth_seq_id_3 137 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 85.03 _pdbx_validate_rmsd_angle.angle_target_value 98.90 _pdbx_validate_rmsd_angle.angle_deviation -13.87 _pdbx_validate_rmsd_angle.angle_standard_deviation 2.20 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ASN A 111 ? A -143.87 26.44 2 1 ASN A 111 ? B -147.58 35.20 3 1 ASN B 111 ? B -148.68 45.09 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY 99 ? A GLY 1 2 1 Y 1 A ASN 100 ? A ASN 2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 ;2'-O-(5-O-phosphono-alpha-D-ribofuranosyl)adenosine 5'-(dihydrogen phosphate) ; V3L 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 C 2 V3L 1 1 1 V3L IAR A . D 2 V3L 1 1 1 V3L IAR B . E 3 HOH 1 3 3 HOH HOH A . E 3 HOH 2 7 7 HOH HOH A . E 3 HOH 3 9 9 HOH HOH A . E 3 HOH 4 10 10 HOH HOH A . E 3 HOH 5 14 14 HOH HOH A . E 3 HOH 6 15 15 HOH HOH A . E 3 HOH 7 16 16 HOH HOH A . E 3 HOH 8 19 19 HOH HOH A . E 3 HOH 9 20 20 HOH HOH A . E 3 HOH 10 21 21 HOH HOH A . E 3 HOH 11 22 22 HOH HOH A . E 3 HOH 12 23 23 HOH HOH A . E 3 HOH 13 28 28 HOH HOH A . E 3 HOH 14 32 32 HOH HOH A . E 3 HOH 15 37 37 HOH HOH A . E 3 HOH 16 55 55 HOH HOH A . E 3 HOH 17 83 83 HOH HOH A . E 3 HOH 18 84 84 HOH HOH A . E 3 HOH 19 85 85 HOH HOH A . E 3 HOH 20 86 86 HOH HOH A . E 3 HOH 21 87 87 HOH HOH A . E 3 HOH 22 88 88 HOH HOH A . E 3 HOH 23 89 89 HOH HOH A . E 3 HOH 24 90 90 HOH HOH A . E 3 HOH 25 91 91 HOH HOH A . E 3 HOH 26 95 95 HOH HOH A . E 3 HOH 27 98 98 HOH HOH A . E 3 HOH 28 184 1 HOH HOH A . E 3 HOH 29 185 99 HOH HOH A . E 3 HOH 30 186 100 HOH HOH A . E 3 HOH 31 187 101 HOH HOH A . E 3 HOH 32 188 102 HOH HOH A . E 3 HOH 33 189 103 HOH HOH A . E 3 HOH 34 190 104 HOH HOH A . E 3 HOH 35 191 106 HOH HOH A . E 3 HOH 36 192 107 HOH HOH A . E 3 HOH 37 193 108 HOH HOH A . E 3 HOH 38 194 109 HOH HOH A . E 3 HOH 39 195 110 HOH HOH A . E 3 HOH 40 196 111 HOH HOH A . E 3 HOH 41 197 112 HOH HOH A . E 3 HOH 42 198 114 HOH HOH A . E 3 HOH 43 199 115 HOH HOH A . E 3 HOH 44 200 116 HOH HOH A . E 3 HOH 45 201 117 HOH HOH A . E 3 HOH 46 202 118 HOH HOH A . E 3 HOH 47 203 119 HOH HOH A . E 3 HOH 48 204 120 HOH HOH A . E 3 HOH 49 205 121 HOH HOH A . E 3 HOH 50 206 122 HOH HOH A . E 3 HOH 51 207 124 HOH HOH A . E 3 HOH 52 208 125 HOH HOH A . E 3 HOH 53 209 126 HOH HOH A . E 3 HOH 54 210 127 HOH HOH A . E 3 HOH 55 211 128 HOH HOH A . E 3 HOH 56 212 129 HOH HOH A . E 3 HOH 57 213 132 HOH HOH A . E 3 HOH 58 214 135 HOH HOH A . E 3 HOH 59 215 136 HOH HOH A . E 3 HOH 60 216 137 HOH HOH A . E 3 HOH 61 217 144 HOH HOH A . E 3 HOH 62 218 146 HOH HOH A . E 3 HOH 63 219 147 HOH HOH A . F 3 HOH 1 4 4 HOH HOH B . F 3 HOH 2 5 5 HOH HOH B . F 3 HOH 3 6 6 HOH HOH B . F 3 HOH 4 8 8 HOH HOH B . F 3 HOH 5 11 11 HOH HOH B . F 3 HOH 6 12 12 HOH HOH B . F 3 HOH 7 13 13 HOH HOH B . F 3 HOH 8 24 24 HOH HOH B . F 3 HOH 9 25 25 HOH HOH B . F 3 HOH 10 27 27 HOH HOH B . F 3 HOH 11 29 29 HOH HOH B . F 3 HOH 12 30 30 HOH HOH B . F 3 HOH 13 31 31 HOH HOH B . F 3 HOH 14 33 33 HOH HOH B . F 3 HOH 15 34 34 HOH HOH B . F 3 HOH 16 35 35 HOH HOH B . F 3 HOH 17 36 36 HOH HOH B . F 3 HOH 18 38 38 HOH HOH B . F 3 HOH 19 39 39 HOH HOH B . F 3 HOH 20 40 40 HOH HOH B . F 3 HOH 21 41 41 HOH HOH B . F 3 HOH 22 42 42 HOH HOH B . F 3 HOH 23 43 43 HOH HOH B . F 3 HOH 24 44 44 HOH HOH B . F 3 HOH 25 45 45 HOH HOH B . F 3 HOH 26 47 47 HOH HOH B . F 3 HOH 27 49 49 HOH HOH B . F 3 HOH 28 50 50 HOH HOH B . F 3 HOH 29 51 51 HOH HOH B . F 3 HOH 30 54 54 HOH HOH B . F 3 HOH 31 58 58 HOH HOH B . F 3 HOH 32 62 62 HOH HOH B . F 3 HOH 33 63 63 HOH HOH B . F 3 HOH 34 64 64 HOH HOH B . F 3 HOH 35 65 65 HOH HOH B . F 3 HOH 36 67 67 HOH HOH B . F 3 HOH 37 74 74 HOH HOH B . F 3 HOH 38 76 76 HOH HOH B . F 3 HOH 39 77 77 HOH HOH B . F 3 HOH 40 78 78 HOH HOH B . F 3 HOH 41 79 79 HOH HOH B . F 3 HOH 42 80 80 HOH HOH B . F 3 HOH 43 81 81 HOH HOH B . F 3 HOH 44 82 82 HOH HOH B . F 3 HOH 45 93 93 HOH HOH B . F 3 HOH 46 96 96 HOH HOH B . F 3 HOH 47 97 97 HOH HOH B . F 3 HOH 48 184 105 HOH HOH B . F 3 HOH 49 185 113 HOH HOH B . F 3 HOH 50 186 123 HOH HOH B . F 3 HOH 51 187 130 HOH HOH B . F 3 HOH 52 188 131 HOH HOH B . F 3 HOH 53 189 133 HOH HOH B . F 3 HOH 54 190 134 HOH HOH B . F 3 HOH 55 191 138 HOH HOH B . F 3 HOH 56 192 139 HOH HOH B . F 3 HOH 57 193 140 HOH HOH B . F 3 HOH 58 194 141 HOH HOH B . F 3 HOH 59 195 142 HOH HOH B . F 3 HOH 60 196 143 HOH HOH B . F 3 HOH 61 197 145 HOH HOH B . #