data_2OTT # _entry.id 2OTT # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.341 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2OTT RCSB RCSB041576 WWPDB D_1000041576 # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 2ja4 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2OTT _pdbx_database_status.recvd_initial_deposition_date 2007-02-09 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Rodamilans, B.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal structure of the third extracellular domain of CD5 reveals the fold of a group B scavenger cysteine-rich receptor domain.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 282 _citation.page_first 12669 _citation.page_last 12677 _citation.year 2007 _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 17322294 _citation.pdbx_database_id_DOI 10.1074/jbc.M611699200 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Rodamilans, B.' 1 ? primary 'Munoz, I.G.' 2 ? primary 'Bragado-Nilsson, E.' 3 ? primary 'Sarrias, M.R.' 4 ? primary 'Padilla, O.' 5 ? primary 'Blanco, F.J.' 6 ? primary 'Lozano, F.' 7 ? primary 'Montoya, G.' 8 ? # _cell.entry_id 2OTT _cell.length_a 74.161 _cell.length_b 74.161 _cell.length_c 128.990 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _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 2OTT _symmetry.space_group_name_H-M 'P 41 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _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 'T-cell surface glycoprotein CD5' 10912.171 2 ? ? CD5_DIII ? 2 water nat water 18.015 77 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Lymphocyte antigen T1/Leu- 1' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;PAVESRLVGGSSICEGTVEVRQGAQWAALCDSSSARSSLRWEEVCREQQCGSVNSYRVLDAGDPTSRGLFCPHQKLSQCH ELWERNSYCKKVFVTCQD ; _entity_poly.pdbx_seq_one_letter_code_can ;PAVESRLVGGSSICEGTVEVRQGAQWAALCDSSSARSSLRWEEVCREQQCGSVNSYRVLDAGDPTSRGLFCPHQKLSQCH ELWERNSYCKKVFVTCQD ; _entity_poly.pdbx_strand_id X,Y _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 PRO n 1 2 ALA n 1 3 VAL n 1 4 GLU n 1 5 SER n 1 6 ARG n 1 7 LEU n 1 8 VAL n 1 9 GLY n 1 10 GLY n 1 11 SER n 1 12 SER n 1 13 ILE n 1 14 CYS n 1 15 GLU n 1 16 GLY n 1 17 THR n 1 18 VAL n 1 19 GLU n 1 20 VAL n 1 21 ARG n 1 22 GLN n 1 23 GLY n 1 24 ALA n 1 25 GLN n 1 26 TRP n 1 27 ALA n 1 28 ALA n 1 29 LEU n 1 30 CYS n 1 31 ASP n 1 32 SER n 1 33 SER n 1 34 SER n 1 35 ALA n 1 36 ARG n 1 37 SER n 1 38 SER n 1 39 LEU n 1 40 ARG n 1 41 TRP n 1 42 GLU n 1 43 GLU n 1 44 VAL n 1 45 CYS n 1 46 ARG n 1 47 GLU n 1 48 GLN n 1 49 GLN n 1 50 CYS n 1 51 GLY n 1 52 SER n 1 53 VAL n 1 54 ASN n 1 55 SER n 1 56 TYR n 1 57 ARG n 1 58 VAL n 1 59 LEU n 1 60 ASP n 1 61 ALA n 1 62 GLY n 1 63 ASP n 1 64 PRO n 1 65 THR n 1 66 SER n 1 67 ARG n 1 68 GLY n 1 69 LEU n 1 70 PHE n 1 71 CYS n 1 72 PRO n 1 73 HIS n 1 74 GLN n 1 75 LYS n 1 76 LEU n 1 77 SER n 1 78 GLN n 1 79 CYS n 1 80 HIS n 1 81 GLU n 1 82 LEU n 1 83 TRP n 1 84 GLU n 1 85 ARG n 1 86 ASN n 1 87 SER n 1 88 TYR n 1 89 CYS n 1 90 LYS n 1 91 LYS n 1 92 VAL n 1 93 PHE n 1 94 VAL n 1 95 THR n 1 96 CYS n 1 97 GLN n 1 98 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 Homo _entity_src_gen.pdbx_gene_src_gene 'CD5, LEU1' _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 B-LYMPHOCYTE _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name human _entity_src_gen.pdbx_host_org_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 9606 _entity_src_gen.host_org_genus Homo _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 'KIDNEY CELLS' _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 HEK-293EBNA _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 pCEP-Pu _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code CD5_HUMAN _struct_ref.pdbx_db_accession P06127 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SRLVGGSSICEGTVEVRQGAQWAALCDSSSARSSLRWEEVCREQQCGSVNSYRVLDAGDPTSRGLFCPHQKLSQCHELWE RNSYCKKVFVTCQ ; _struct_ref.pdbx_align_begin 276 _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 2OTT X 5 ? 97 ? P06127 276 ? 368 ? 11 103 2 1 2OTT Y 5 ? 97 ? P06127 276 ? 368 ? 11 103 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 2OTT PRO X 1 ? UNP P06127 ? ? 'cloning artifact' 7 1 1 2OTT ALA X 2 ? UNP P06127 ? ? 'cloning artifact' 8 2 1 2OTT VAL X 3 ? UNP P06127 ? ? 'cloning artifact' 9 3 1 2OTT GLU X 4 ? UNP P06127 ? ? 'cloning artifact' 10 4 1 2OTT ASP X 98 ? UNP P06127 ? ? 'cloning artifact' 104 5 2 2OTT PRO Y 1 ? UNP P06127 ? ? 'cloning artifact' 7 6 2 2OTT ALA Y 2 ? UNP P06127 ? ? 'cloning artifact' 8 7 2 2OTT VAL Y 3 ? UNP P06127 ? ? 'cloning artifact' 9 8 2 2OTT GLU Y 4 ? UNP P06127 ? ? 'cloning artifact' 10 9 2 2OTT ASP Y 98 ? UNP P06127 ? ? 'cloning artifact' 104 10 # 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 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 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 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 2OTT _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 4.06 _exptl_crystal.density_percent_sol 69.72 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.4 _exptl_crystal_grow.pdbx_details '10mM Hepes, 300mM Na,Cl pH7.4, VAPOR DIFFUSION, temperature 289K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 110 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2006-08-03 _diffrn_detector.details 'dinamically bendable mirror' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'LN2 cooled fixed-exit Si(11) monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X06SA' _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X06SA _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97 # _reflns.entry_id 2OTT _reflns.observed_criterion_sigma_I 1 _reflns.observed_criterion_sigma_F 1 _reflns.d_resolution_low 40 _reflns.d_resolution_high 2.5 _reflns.number_obs 12350 _reflns.number_all 13033 _reflns.percent_possible_obs 99.6 _reflns.pdbx_Rmerge_I_obs 0.07 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 6.9 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 8.9 _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 2.5 _reflns_shell.d_res_low 2.65 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs 0.34 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.pdbx_redundancy 9.1 _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 ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 2OTT _refine.ls_number_reflns_obs 12350 _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 40.69 _refine.ls_d_res_high 2.50 _refine.ls_percent_reflns_obs 99.60 _refine.ls_R_factor_obs 0.21842 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.21638 _refine.ls_R_factor_R_free 0.25863 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.9 _refine.ls_number_reflns_R_free 631 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.925 _refine.correlation_coeff_Fo_to_Fc_free 0.894 _refine.B_iso_mean 24.904 _refine.aniso_B[1][1] -0.02 _refine.aniso_B[2][2] -0.02 _refine.aniso_B[3][3] 0.04 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _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 0.273 _refine.pdbx_overall_ESU_R_Free 0.232 _refine.overall_SU_ML 0.141 _refine.overall_SU_B 11.690 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _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.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_phase_error ? _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 1452 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 77 _refine_hist.number_atoms_total 1529 _refine_hist.d_res_high 2.50 _refine_hist.d_res_low 40.69 # 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 0.025 0.021 ? 1486 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.409 1.929 ? 2010 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 9.829 5.000 ? 182 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 40.536 23.784 ? 74 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 20.622 15.000 ? 248 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 24.979 15.000 ? 14 'X-RAY DIFFRACTION' ? r_chiral_restr 0.187 0.200 ? 212 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.009 0.020 ? 1134 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.251 0.200 ? 551 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.318 0.200 ? 989 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.167 0.200 ? 73 '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 0.224 0.200 ? 37 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.127 0.200 ? 10 '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 1.447 1.500 ? 946 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 2.385 2.000 ? 1470 'X-RAY DIFFRACTION' ? r_scbond_it 3.719 3.000 ? 627 'X-RAY DIFFRACTION' ? r_scangle_it 5.694 4.500 ? 540 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.503 _refine_ls_shell.d_res_low 2.568 _refine_ls_shell.number_reflns_R_work 868 _refine_ls_shell.R_factor_R_work 0.290 _refine_ls_shell.percent_reflns_obs 97.98 _refine_ls_shell.R_factor_R_free 0.327 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 53 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2OTT _struct.title 'Crystal structure of CD5_DIII' _struct.pdbx_descriptor 'T-cell surface glycoprotein CD5' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2OTT _struct_keywords.pdbx_keywords 'IMMUNE SYSTEM' _struct_keywords.text 'SRCR group B domain, Immune System' # 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 ? # 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 SER A 37 ? GLN A 48 ? SER X 43 GLN X 54 1 ? 12 HELX_P HELX_P2 2 LYS A 75 ? CYS A 79 ? LYS X 81 CYS X 85 5 ? 5 HELX_P HELX_P3 3 SER B 38 ? GLN B 49 ? SER Y 44 GLN Y 55 1 ? 12 HELX_P HELX_P4 4 LYS B 75 ? CYS B 79 ? LYS Y 81 CYS Y 85 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 14 SG ? ? ? 1_555 A CYS 50 SG ? ? X CYS 20 X CYS 56 1_555 ? ? ? ? ? ? ? 2.149 ? ? disulf2 disulf ? ? A CYS 30 SG ? ? ? 1_555 A CYS 89 SG ? ? X CYS 36 X CYS 95 1_555 ? ? ? ? ? ? ? 2.121 ? ? disulf3 disulf ? ? A CYS 45 SG ? ? ? 1_555 A CYS 96 SG ? ? X CYS 51 X CYS 102 1_555 ? ? ? ? ? ? ? 2.061 ? ? disulf4 disulf ? ? A CYS 71 SG ? ? ? 1_555 A CYS 79 SG ? ? X CYS 77 X CYS 85 1_555 ? ? ? ? ? ? ? 2.043 ? ? disulf5 disulf ? ? B CYS 14 SG ? ? ? 1_555 B CYS 50 SG ? ? Y CYS 20 Y CYS 56 1_555 ? ? ? ? ? ? ? 2.096 ? ? disulf6 disulf ? ? B CYS 30 SG ? ? ? 1_555 B CYS 89 SG ? ? Y CYS 36 Y CYS 95 1_555 ? ? ? ? ? ? ? 2.069 ? ? disulf7 disulf ? ? B CYS 45 SG ? ? ? 1_555 B CYS 96 SG ? ? Y CYS 51 Y CYS 102 1_555 ? ? ? ? ? ? ? 2.059 ? ? disulf8 disulf ? ? B CYS 71 SG ? ? ? 1_555 B CYS 79 SG ? ? Y CYS 77 Y CYS 85 1_555 ? ? ? ? ? ? ? 2.082 ? ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id ALA _struct_mon_prot_cis.label_seq_id 24 _struct_mon_prot_cis.label_asym_id B _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id ALA _struct_mon_prot_cis.auth_seq_id 30 _struct_mon_prot_cis.auth_asym_id Y _struct_mon_prot_cis.pdbx_label_comp_id_2 GLN _struct_mon_prot_cis.pdbx_label_seq_id_2 25 _struct_mon_prot_cis.pdbx_label_asym_id_2 B _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 GLN _struct_mon_prot_cis.pdbx_auth_seq_id_2 31 _struct_mon_prot_cis.pdbx_auth_asym_id_2 Y _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 19.44 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? B ? 4 ? C ? 2 ? D ? 3 ? E ? 4 ? F ? 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 B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel C 1 2 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel E 1 2 ? anti-parallel E 2 3 ? anti-parallel E 3 4 ? anti-parallel F 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 GLU A 4 ? GLY A 9 ? GLU X 10 GLY X 15 A 2 GLU A 15 ? ARG A 21 ? GLU X 21 ARG X 27 A 3 ALA A 27 ? ALA A 28 ? ALA X 33 ALA X 34 B 1 GLU A 4 ? GLY A 9 ? GLU X 10 GLY X 15 B 2 GLU A 15 ? ARG A 21 ? GLU X 21 ARG X 27 B 3 LYS A 91 ? CYS A 96 ? LYS X 97 CYS X 102 B 4 VAL A 53 ? LEU A 59 ? VAL X 59 LEU X 65 C 1 GLY A 68 ? PHE A 70 ? GLY X 74 PHE X 76 C 2 TRP A 83 ? ARG A 85 ? TRP X 89 ARG X 91 D 1 GLU B 4 ? GLY B 9 ? GLU Y 10 GLY Y 15 D 2 GLU B 15 ? ARG B 21 ? GLU Y 21 ARG Y 27 D 3 ALA B 27 ? ALA B 28 ? ALA Y 33 ALA Y 34 E 1 GLU B 4 ? GLY B 9 ? GLU Y 10 GLY Y 15 E 2 GLU B 15 ? ARG B 21 ? GLU Y 21 ARG Y 27 E 3 LYS B 91 ? CYS B 96 ? LYS Y 97 CYS Y 102 E 4 VAL B 53 ? LEU B 59 ? VAL Y 59 LEU Y 65 F 1 GLY B 68 ? PHE B 70 ? GLY Y 74 PHE Y 76 F 2 TRP B 83 ? ARG B 85 ? TRP Y 89 ARG Y 91 # 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 GLU A 4 ? N GLU X 10 O ARG A 21 ? O ARG X 27 A 2 3 N VAL A 20 ? N VAL X 26 O ALA A 27 ? O ALA X 33 B 1 2 N GLU A 4 ? N GLU X 10 O ARG A 21 ? O ARG X 27 B 2 3 N GLY A 16 ? N GLY X 22 O VAL A 94 ? O VAL X 100 B 3 4 O THR A 95 ? O THR X 101 N ASN A 54 ? N ASN X 60 C 1 2 N PHE A 70 ? N PHE X 76 O TRP A 83 ? O TRP X 89 D 1 2 N ARG B 6 ? N ARG Y 12 O GLU B 19 ? O GLU Y 25 D 2 3 N VAL B 20 ? N VAL Y 26 O ALA B 27 ? O ALA Y 33 E 1 2 N ARG B 6 ? N ARG Y 12 O GLU B 19 ? O GLU Y 25 E 2 3 N GLY B 16 ? N GLY Y 22 O VAL B 94 ? O VAL Y 100 E 3 4 O PHE B 93 ? O PHE Y 99 N ARG B 57 ? N ARG Y 63 F 1 2 N GLY B 68 ? N GLY Y 74 O ARG B 85 ? O ARG Y 91 # _database_PDB_matrix.entry_id 2OTT _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 2OTT _atom_sites.fract_transf_matrix[1][1] 0.013484 _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] 0.013484 _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] 0.007753 _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 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 PRO 1 7 7 PRO PRO X . n A 1 2 ALA 2 8 8 ALA ALA X . n A 1 3 VAL 3 9 9 VAL VAL X . n A 1 4 GLU 4 10 10 GLU GLU X . n A 1 5 SER 5 11 11 SER SER X . n A 1 6 ARG 6 12 12 ARG ARG X . n A 1 7 LEU 7 13 13 LEU LEU X . n A 1 8 VAL 8 14 14 VAL VAL X . n A 1 9 GLY 9 15 15 GLY GLY X . n A 1 10 GLY 10 16 16 GLY GLY X . n A 1 11 SER 11 17 17 SER SER X . n A 1 12 SER 12 18 18 SER SER X . n A 1 13 ILE 13 19 19 ILE ILE X . n A 1 14 CYS 14 20 20 CYS CYS X . n A 1 15 GLU 15 21 21 GLU GLU X . n A 1 16 GLY 16 22 22 GLY GLY X . n A 1 17 THR 17 23 23 THR THR X . n A 1 18 VAL 18 24 24 VAL VAL X . n A 1 19 GLU 19 25 25 GLU GLU X . n A 1 20 VAL 20 26 26 VAL VAL X . n A 1 21 ARG 21 27 27 ARG ARG X . n A 1 22 GLN 22 28 28 GLN GLN X . n A 1 23 GLY 23 29 29 GLY GLY X . n A 1 24 ALA 24 30 30 ALA ALA X . n A 1 25 GLN 25 31 31 GLN GLN X . n A 1 26 TRP 26 32 32 TRP TRP X . n A 1 27 ALA 27 33 33 ALA ALA X . n A 1 28 ALA 28 34 34 ALA ALA X . n A 1 29 LEU 29 35 35 LEU LEU X . n A 1 30 CYS 30 36 36 CYS CYS X . n A 1 31 ASP 31 37 37 ASP ASP X . n A 1 32 SER 32 38 38 SER SER X . n A 1 33 SER 33 39 ? ? ? X . n A 1 34 SER 34 40 ? ? ? X . n A 1 35 ALA 35 41 ? ? ? X . n A 1 36 ARG 36 42 ? ? ? X . n A 1 37 SER 37 43 43 SER SER X . n A 1 38 SER 38 44 44 SER SER X . n A 1 39 LEU 39 45 45 LEU LEU X . n A 1 40 ARG 40 46 46 ARG ARG X . n A 1 41 TRP 41 47 47 TRP TRP X . n A 1 42 GLU 42 48 48 GLU GLU X . n A 1 43 GLU 43 49 49 GLU GLU X . n A 1 44 VAL 44 50 50 VAL VAL X . n A 1 45 CYS 45 51 51 CYS CYS X . n A 1 46 ARG 46 52 52 ARG ARG X . n A 1 47 GLU 47 53 53 GLU GLU X . n A 1 48 GLN 48 54 54 GLN GLN X . n A 1 49 GLN 49 55 55 GLN GLN X . n A 1 50 CYS 50 56 56 CYS CYS X . n A 1 51 GLY 51 57 57 GLY GLY X . n A 1 52 SER 52 58 58 SER SER X . n A 1 53 VAL 53 59 59 VAL VAL X . n A 1 54 ASN 54 60 60 ASN ASN X . n A 1 55 SER 55 61 61 SER SER X . n A 1 56 TYR 56 62 62 TYR TYR X . n A 1 57 ARG 57 63 63 ARG ARG X . n A 1 58 VAL 58 64 64 VAL VAL X . n A 1 59 LEU 59 65 65 LEU LEU X . n A 1 60 ASP 60 66 66 ASP ASP X . n A 1 61 ALA 61 67 67 ALA ALA X . n A 1 62 GLY 62 68 68 GLY GLY X . n A 1 63 ASP 63 69 69 ASP ASP X . n A 1 64 PRO 64 70 70 PRO PRO X . n A 1 65 THR 65 71 71 THR THR X . n A 1 66 SER 66 72 72 SER SER X . n A 1 67 ARG 67 73 73 ARG ARG X . n A 1 68 GLY 68 74 74 GLY GLY X . n A 1 69 LEU 69 75 75 LEU LEU X . n A 1 70 PHE 70 76 76 PHE PHE X . n A 1 71 CYS 71 77 77 CYS CYS X . n A 1 72 PRO 72 78 78 PRO PRO X . n A 1 73 HIS 73 79 79 HIS HIS X . n A 1 74 GLN 74 80 80 GLN GLN X . n A 1 75 LYS 75 81 81 LYS LYS X . n A 1 76 LEU 76 82 82 LEU LEU X . n A 1 77 SER 77 83 83 SER SER X . n A 1 78 GLN 78 84 84 GLN GLN X . n A 1 79 CYS 79 85 85 CYS CYS X . n A 1 80 HIS 80 86 86 HIS HIS X . n A 1 81 GLU 81 87 87 GLU GLU X . n A 1 82 LEU 82 88 88 LEU LEU X . n A 1 83 TRP 83 89 89 TRP TRP X . n A 1 84 GLU 84 90 90 GLU GLU X . n A 1 85 ARG 85 91 91 ARG ARG X . n A 1 86 ASN 86 92 92 ASN ASN X . n A 1 87 SER 87 93 93 SER SER X . n A 1 88 TYR 88 94 94 TYR TYR X . n A 1 89 CYS 89 95 95 CYS CYS X . n A 1 90 LYS 90 96 96 LYS LYS X . n A 1 91 LYS 91 97 97 LYS LYS X . n A 1 92 VAL 92 98 98 VAL VAL X . n A 1 93 PHE 93 99 99 PHE PHE X . n A 1 94 VAL 94 100 100 VAL VAL X . n A 1 95 THR 95 101 101 THR THR X . n A 1 96 CYS 96 102 102 CYS CYS X . n A 1 97 GLN 97 103 103 GLN GLN X . n A 1 98 ASP 98 104 104 ASP ASP X . n B 1 1 PRO 1 7 7 PRO PRO Y . n B 1 2 ALA 2 8 8 ALA ALA Y . n B 1 3 VAL 3 9 9 VAL VAL Y . n B 1 4 GLU 4 10 10 GLU GLU Y . n B 1 5 SER 5 11 11 SER SER Y . n B 1 6 ARG 6 12 12 ARG ARG Y . n B 1 7 LEU 7 13 13 LEU LEU Y . n B 1 8 VAL 8 14 14 VAL VAL Y . n B 1 9 GLY 9 15 15 GLY GLY Y . n B 1 10 GLY 10 16 16 GLY GLY Y . n B 1 11 SER 11 17 17 SER SER Y . n B 1 12 SER 12 18 18 SER SER Y . n B 1 13 ILE 13 19 19 ILE ILE Y . n B 1 14 CYS 14 20 20 CYS CYS Y . n B 1 15 GLU 15 21 21 GLU GLU Y . n B 1 16 GLY 16 22 22 GLY GLY Y . n B 1 17 THR 17 23 23 THR THR Y . n B 1 18 VAL 18 24 24 VAL VAL Y . n B 1 19 GLU 19 25 25 GLU GLU Y . n B 1 20 VAL 20 26 26 VAL VAL Y . n B 1 21 ARG 21 27 27 ARG ARG Y . n B 1 22 GLN 22 28 28 GLN GLN Y . n B 1 23 GLY 23 29 29 GLY GLY Y . n B 1 24 ALA 24 30 30 ALA ALA Y . n B 1 25 GLN 25 31 31 GLN GLN Y . n B 1 26 TRP 26 32 32 TRP TRP Y . n B 1 27 ALA 27 33 33 ALA ALA Y . n B 1 28 ALA 28 34 34 ALA ALA Y . n B 1 29 LEU 29 35 35 LEU LEU Y . n B 1 30 CYS 30 36 36 CYS CYS Y . n B 1 31 ASP 31 37 37 ASP ASP Y . n B 1 32 SER 32 38 ? ? ? Y . n B 1 33 SER 33 39 ? ? ? Y . n B 1 34 SER 34 40 ? ? ? Y . n B 1 35 ALA 35 41 ? ? ? Y . n B 1 36 ARG 36 42 ? ? ? Y . n B 1 37 SER 37 43 ? ? ? Y . n B 1 38 SER 38 44 44 SER SER Y . n B 1 39 LEU 39 45 45 LEU LEU Y . n B 1 40 ARG 40 46 46 ARG ARG Y . n B 1 41 TRP 41 47 47 TRP TRP Y . n B 1 42 GLU 42 48 48 GLU GLU Y . n B 1 43 GLU 43 49 49 GLU GLU Y . n B 1 44 VAL 44 50 50 VAL VAL Y . n B 1 45 CYS 45 51 51 CYS CYS Y . n B 1 46 ARG 46 52 52 ARG ARG Y . n B 1 47 GLU 47 53 53 GLU GLU Y . n B 1 48 GLN 48 54 54 GLN GLN Y . n B 1 49 GLN 49 55 55 GLN GLN Y . n B 1 50 CYS 50 56 56 CYS CYS Y . n B 1 51 GLY 51 57 57 GLY GLY Y . n B 1 52 SER 52 58 58 SER SER Y . n B 1 53 VAL 53 59 59 VAL VAL Y . n B 1 54 ASN 54 60 60 ASN ASN Y . n B 1 55 SER 55 61 61 SER SER Y . n B 1 56 TYR 56 62 62 TYR TYR Y . n B 1 57 ARG 57 63 63 ARG ARG Y . n B 1 58 VAL 58 64 64 VAL VAL Y . n B 1 59 LEU 59 65 65 LEU LEU Y . n B 1 60 ASP 60 66 66 ASP ASP Y . n B 1 61 ALA 61 67 67 ALA ALA Y . n B 1 62 GLY 62 68 68 GLY GLY Y . n B 1 63 ASP 63 69 69 ASP ASP Y . n B 1 64 PRO 64 70 70 PRO PRO Y . n B 1 65 THR 65 71 71 THR THR Y . n B 1 66 SER 66 72 72 SER SER Y . n B 1 67 ARG 67 73 73 ARG ARG Y . n B 1 68 GLY 68 74 74 GLY GLY Y . n B 1 69 LEU 69 75 75 LEU LEU Y . n B 1 70 PHE 70 76 76 PHE PHE Y . n B 1 71 CYS 71 77 77 CYS CYS Y . n B 1 72 PRO 72 78 78 PRO PRO Y . n B 1 73 HIS 73 79 79 HIS HIS Y . n B 1 74 GLN 74 80 80 GLN GLN Y . n B 1 75 LYS 75 81 81 LYS LYS Y . n B 1 76 LEU 76 82 82 LEU LEU Y . n B 1 77 SER 77 83 83 SER SER Y . n B 1 78 GLN 78 84 84 GLN GLN Y . n B 1 79 CYS 79 85 85 CYS CYS Y . n B 1 80 HIS 80 86 86 HIS HIS Y . n B 1 81 GLU 81 87 87 GLU GLU Y . n B 1 82 LEU 82 88 88 LEU LEU Y . n B 1 83 TRP 83 89 89 TRP TRP Y . n B 1 84 GLU 84 90 90 GLU GLU Y . n B 1 85 ARG 85 91 91 ARG ARG Y . n B 1 86 ASN 86 92 92 ASN ASN Y . n B 1 87 SER 87 93 93 SER SER Y . n B 1 88 TYR 88 94 94 TYR TYR Y . n B 1 89 CYS 89 95 95 CYS CYS Y . n B 1 90 LYS 90 96 96 LYS LYS Y . n B 1 91 LYS 91 97 97 LYS LYS Y . n B 1 92 VAL 92 98 98 VAL VAL Y . n B 1 93 PHE 93 99 99 PHE PHE Y . n B 1 94 VAL 94 100 100 VAL VAL Y . n B 1 95 THR 95 101 101 THR THR Y . n B 1 96 CYS 96 102 102 CYS CYS Y . n B 1 97 GLN 97 103 103 GLN GLN Y . n B 1 98 ASP 98 104 104 ASP ASP Y . 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 1 105 1 HOH HOH X . C 2 HOH 2 106 2 HOH HOH X . C 2 HOH 3 107 3 HOH HOH X . C 2 HOH 4 108 5 HOH HOH X . C 2 HOH 5 109 6 HOH HOH X . C 2 HOH 6 110 8 HOH HOH X . C 2 HOH 7 111 9 HOH HOH X . C 2 HOH 8 112 10 HOH HOH X . C 2 HOH 9 113 11 HOH HOH X . C 2 HOH 10 114 13 HOH HOH X . C 2 HOH 11 115 14 HOH HOH X . C 2 HOH 12 116 16 HOH HOH X . C 2 HOH 13 117 18 HOH HOH X . C 2 HOH 14 118 23 HOH HOH X . C 2 HOH 15 119 24 HOH HOH X . C 2 HOH 16 120 26 HOH HOH X . C 2 HOH 17 121 27 HOH HOH X . C 2 HOH 18 122 31 HOH HOH X . C 2 HOH 19 123 32 HOH HOH X . C 2 HOH 20 124 33 HOH HOH X . C 2 HOH 21 125 34 HOH HOH X . C 2 HOH 22 126 39 HOH HOH X . C 2 HOH 23 127 40 HOH HOH X . C 2 HOH 24 128 42 HOH HOH X . C 2 HOH 25 129 44 HOH HOH X . C 2 HOH 26 130 46 HOH HOH X . C 2 HOH 27 131 47 HOH HOH X . C 2 HOH 28 132 53 HOH HOH X . C 2 HOH 29 133 56 HOH HOH X . C 2 HOH 30 134 58 HOH HOH X . C 2 HOH 31 135 61 HOH HOH X . C 2 HOH 32 136 63 HOH HOH X . C 2 HOH 33 137 67 HOH HOH X . C 2 HOH 34 138 70 HOH HOH X . C 2 HOH 35 139 77 HOH HOH X . C 2 HOH 36 140 84 HOH HOH X . C 2 HOH 37 141 85 HOH HOH X . C 2 HOH 38 142 87 HOH HOH X . D 2 HOH 1 105 4 HOH HOH Y . D 2 HOH 2 106 7 HOH HOH Y . D 2 HOH 3 107 12 HOH HOH Y . D 2 HOH 4 108 15 HOH HOH Y . D 2 HOH 5 109 19 HOH HOH Y . D 2 HOH 6 110 20 HOH HOH Y . D 2 HOH 7 111 21 HOH HOH Y . D 2 HOH 8 112 22 HOH HOH Y . D 2 HOH 9 113 25 HOH HOH Y . D 2 HOH 10 114 28 HOH HOH Y . D 2 HOH 11 115 29 HOH HOH Y . D 2 HOH 12 116 30 HOH HOH Y . D 2 HOH 13 117 35 HOH HOH Y . D 2 HOH 14 118 36 HOH HOH Y . D 2 HOH 15 119 37 HOH HOH Y . D 2 HOH 16 120 38 HOH HOH Y . D 2 HOH 17 121 41 HOH HOH Y . D 2 HOH 18 122 43 HOH HOH Y . D 2 HOH 19 123 45 HOH HOH Y . D 2 HOH 20 124 48 HOH HOH Y . D 2 HOH 21 125 50 HOH HOH Y . D 2 HOH 22 126 52 HOH HOH Y . D 2 HOH 23 127 54 HOH HOH Y . D 2 HOH 24 128 55 HOH HOH Y . D 2 HOH 25 129 57 HOH HOH Y . D 2 HOH 26 130 59 HOH HOH Y . D 2 HOH 27 131 60 HOH HOH Y . D 2 HOH 28 132 64 HOH HOH Y . D 2 HOH 29 133 66 HOH HOH Y . D 2 HOH 30 134 71 HOH HOH Y . D 2 HOH 31 135 73 HOH HOH Y . D 2 HOH 32 136 74 HOH HOH Y . D 2 HOH 33 137 75 HOH HOH Y . D 2 HOH 34 138 76 HOH HOH Y . D 2 HOH 35 139 79 HOH HOH Y . D 2 HOH 36 140 82 HOH HOH Y . D 2 HOH 37 141 83 HOH HOH Y . D 2 HOH 38 142 92 HOH HOH Y . D 2 HOH 39 143 94 HOH HOH Y . # 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 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id X _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 109 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # 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 2007-03-13 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-18 5 'Structure model' 1 4 2021-03-31 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' Advisory 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Refinement description' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Source and taxonomy' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' software 2 5 'Structure model' entity_src_gen 3 5 'Structure model' struct_ref_seq_dif # 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 4 'Structure model' '_software.name' 2 5 'Structure model' '_entity_src_gen.pdbx_host_org_strain' 3 5 'Structure model' '_struct_ref_seq_dif.details' # loop_ _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] _pdbx_refine_tls.pdbx_refine_id 1 ? refined 19.7903 53.0589 -0.7280 0.1163 0.2732 0.1835 0.0294 0.0170 0.0293 7.6415 1.3863 1.8939 0.9449 0.5072 0.2946 -0.0823 0.8015 0.1066 -0.2313 0.0785 0.0094 -0.0696 0.0615 0.0038 'X-RAY DIFFRACTION' 2 ? refined 28.7053 72.9264 15.3588 0.3891 0.1051 0.1857 -0.0596 0.1188 0.0562 3.2003 7.4032 4.3299 1.9873 1.0100 2.7133 -0.2821 0.6243 0.4015 -1.1375 0.3089 -0.3461 -1.0391 0.3531 -0.0268 'X-RAY DIFFRACTION' # loop_ _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.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 X 7 A 1 X 104 A 98 ? 'X-RAY DIFFRACTION' ? 2 2 Y 7 B 1 Y 104 B 98 ? 'X-RAY DIFFRACTION' ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 HKL-2000 'data collection' . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 SnB phasing . ? 5 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 X _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 110 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 X _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 127 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.09 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 CA _pdbx_validate_rmsd_bond.auth_asym_id_1 X _pdbx_validate_rmsd_bond.auth_comp_id_1 ALA _pdbx_validate_rmsd_bond.auth_seq_id_1 30 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 CB _pdbx_validate_rmsd_bond.auth_asym_id_2 X _pdbx_validate_rmsd_bond.auth_comp_id_2 ALA _pdbx_validate_rmsd_bond.auth_seq_id_2 30 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.649 _pdbx_validate_rmsd_bond.bond_target_value 1.520 _pdbx_validate_rmsd_bond.bond_deviation 0.129 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.021 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 NE X ARG 63 ? ? CZ X ARG 63 ? ? NH1 X ARG 63 ? ? 125.44 120.30 5.14 0.50 N 2 1 NE X ARG 63 ? ? CZ X ARG 63 ? ? NH2 X ARG 63 ? ? 113.26 120.30 -7.04 0.50 N 3 1 NE X ARG 91 ? ? CZ X ARG 91 ? ? NH1 X ARG 91 ? ? 123.94 120.30 3.64 0.50 N 4 1 NE X ARG 91 ? ? CZ X ARG 91 ? ? NH2 X ARG 91 ? ? 116.09 120.30 -4.21 0.50 N 5 1 N Y ALA 30 ? ? CA Y ALA 30 ? ? C Y ALA 30 ? ? 92.00 111.00 -19.00 2.70 N 6 1 CB Y ASP 66 ? ? CG Y ASP 66 ? ? OD1 Y ASP 66 ? ? 125.42 118.30 7.12 0.90 N 7 1 NE Y ARG 91 ? ? CZ Y ARG 91 ? ? NH1 Y ARG 91 ? ? 124.80 120.30 4.50 0.50 N 8 1 NE Y ARG 91 ? ? CZ Y ARG 91 ? ? NH2 Y ARG 91 ? ? 114.87 120.30 -5.43 0.50 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 GLN X 28 ? ? -109.46 -94.06 2 1 HIS X 79 ? ? -170.51 138.51 3 1 SER X 83 ? ? -58.48 -4.19 4 1 ALA Y 30 ? ? -117.55 -162.18 # loop_ _pdbx_validate_peptide_omega.id _pdbx_validate_peptide_omega.PDB_model_num _pdbx_validate_peptide_omega.auth_comp_id_1 _pdbx_validate_peptide_omega.auth_asym_id_1 _pdbx_validate_peptide_omega.auth_seq_id_1 _pdbx_validate_peptide_omega.PDB_ins_code_1 _pdbx_validate_peptide_omega.label_alt_id_1 _pdbx_validate_peptide_omega.auth_comp_id_2 _pdbx_validate_peptide_omega.auth_asym_id_2 _pdbx_validate_peptide_omega.auth_seq_id_2 _pdbx_validate_peptide_omega.PDB_ins_code_2 _pdbx_validate_peptide_omega.label_alt_id_2 _pdbx_validate_peptide_omega.omega 1 1 ALA X 30 ? ? GLN X 31 ? ? 148.77 2 1 ASP X 37 ? ? SER X 38 ? ? 135.26 3 1 GLN Y 28 ? ? GLY Y 29 ? ? -149.25 4 1 GLY Y 29 ? ? ALA Y 30 ? ? -34.34 # 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 X SER 39 ? A SER 33 2 1 Y 1 X SER 40 ? A SER 34 3 1 Y 1 X ALA 41 ? A ALA 35 4 1 Y 1 X ARG 42 ? A ARG 36 5 1 Y 1 Y SER 38 ? B SER 32 6 1 Y 1 Y SER 39 ? B SER 33 7 1 Y 1 Y SER 40 ? B SER 34 8 1 Y 1 Y ALA 41 ? B ALA 35 9 1 Y 1 Y ARG 42 ? B ARG 36 10 1 Y 1 Y SER 43 ? B SER 37 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #