data_2YXB # _entry.id 2YXB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2YXB RCSB RCSB027251 WWPDB D_1000027251 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id ape001001686.2 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2YXB _pdbx_database_status.recvd_initial_deposition_date 2007-04-25 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Handa, N.' 1 'Bessho, Y.' 2 'Yokoyama, S.' 3 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 4 # _citation.id primary _citation.title 'Crystal structure of the methylmalonyl-CoA mutase alpha-subunit from Aeropyrum pernix' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Handa, N.' 1 primary 'Bessho, Y.' 2 primary 'Yokoyama, S.' 3 # _cell.entry_id 2YXB _cell.length_a 42.902 _cell.length_b 51.134 _cell.length_c 54.564 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 2YXB _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _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 'Coenzyme B12-dependent mutase' 17982.953 1 5.4.99.2 ? ? ? 2 water nat water 18.015 79 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Methylmalonyl-CoA mutase' # _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 ;(MSE)SSLQSTRERVLGTPRRRYKVLVAK(MSE)GLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVA(MSE)AAVQE DVDVIGVSILNGAHLHL(MSE)KRL(MSE)AKLRELGADDIPVVLGGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVR KLAEEKR(MSE)REEAEASEQVGQA ; _entity_poly.pdbx_seq_one_letter_code_can ;MSSLQSTRERVLGTPRRRYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQEDVDVIGVSILNG AHLHLMKRLMAKLRELGADDIPVVLGGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAEEKRMREEAEASEQVGQ A ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ape001001686.2 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MSE n 1 2 SER n 1 3 SER n 1 4 LEU n 1 5 GLN n 1 6 SER n 1 7 THR n 1 8 ARG n 1 9 GLU n 1 10 ARG n 1 11 VAL n 1 12 LEU n 1 13 GLY n 1 14 THR n 1 15 PRO n 1 16 ARG n 1 17 ARG n 1 18 ARG n 1 19 TYR n 1 20 LYS n 1 21 VAL n 1 22 LEU n 1 23 VAL n 1 24 ALA n 1 25 LYS n 1 26 MSE n 1 27 GLY n 1 28 LEU n 1 29 ASP n 1 30 GLY n 1 31 HIS n 1 32 ASP n 1 33 ARG n 1 34 GLY n 1 35 ALA n 1 36 LYS n 1 37 VAL n 1 38 VAL n 1 39 ALA n 1 40 ARG n 1 41 ALA n 1 42 LEU n 1 43 ARG n 1 44 ASP n 1 45 ALA n 1 46 GLY n 1 47 PHE n 1 48 GLU n 1 49 VAL n 1 50 VAL n 1 51 TYR n 1 52 THR n 1 53 GLY n 1 54 LEU n 1 55 ARG n 1 56 GLN n 1 57 THR n 1 58 PRO n 1 59 GLU n 1 60 GLN n 1 61 VAL n 1 62 ALA n 1 63 MSE n 1 64 ALA n 1 65 ALA n 1 66 VAL n 1 67 GLN n 1 68 GLU n 1 69 ASP n 1 70 VAL n 1 71 ASP n 1 72 VAL n 1 73 ILE n 1 74 GLY n 1 75 VAL n 1 76 SER n 1 77 ILE n 1 78 LEU n 1 79 ASN n 1 80 GLY n 1 81 ALA n 1 82 HIS n 1 83 LEU n 1 84 HIS n 1 85 LEU n 1 86 MSE n 1 87 LYS n 1 88 ARG n 1 89 LEU n 1 90 MSE n 1 91 ALA n 1 92 LYS n 1 93 LEU n 1 94 ARG n 1 95 GLU n 1 96 LEU n 1 97 GLY n 1 98 ALA n 1 99 ASP n 1 100 ASP n 1 101 ILE n 1 102 PRO n 1 103 VAL n 1 104 VAL n 1 105 LEU n 1 106 GLY n 1 107 GLY n 1 108 THR n 1 109 ILE n 1 110 PRO n 1 111 ILE n 1 112 PRO n 1 113 ASP n 1 114 LEU n 1 115 GLU n 1 116 PRO n 1 117 LEU n 1 118 ARG n 1 119 SER n 1 120 LEU n 1 121 GLY n 1 122 ILE n 1 123 ARG n 1 124 GLU n 1 125 ILE n 1 126 PHE n 1 127 LEU n 1 128 PRO n 1 129 GLY n 1 130 THR n 1 131 SER n 1 132 LEU n 1 133 GLY n 1 134 GLU n 1 135 ILE n 1 136 ILE n 1 137 GLU n 1 138 LYS n 1 139 VAL n 1 140 ARG n 1 141 LYS n 1 142 LEU n 1 143 ALA n 1 144 GLU n 1 145 GLU n 1 146 LYS n 1 147 ARG n 1 148 MSE n 1 149 ARG n 1 150 GLU n 1 151 GLU n 1 152 ALA n 1 153 GLU n 1 154 ALA n 1 155 SER n 1 156 GLU n 1 157 GLN n 1 158 VAL n 1 159 GLY n 1 160 GLN n 1 161 ALA 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 ? _entity_src_gen.gene_src_genus Aeropyrum _entity_src_gen.pdbx_gene_src_gene ? _entity_src_gen.gene_src_species 'Aeropyrum pernix' _entity_src_gen.gene_src_strain K1 _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 'Aeropyrum pernix' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 272557 _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 Escherichia _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 'BL21-CodonPlus (DE3)-RIL-X' _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 plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pET-21a _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9YBB1_AERPE _struct_ref.pdbx_db_accession Q9YBB1 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MSSLQSTRERVLGTPRRRYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQEDVDVIGVSILNG AHLHLMKRLMAKLRELGADDIPVVLGGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAEEKRMREEAEASEQVGQ A ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2YXB _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 161 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9YBB1 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 161 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 3 _struct_ref_seq.pdbx_auth_seq_align_end 163 # 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 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 2YXB _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.662207 _exptl_crystal.density_percent_sol 26.002010 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'oil batch' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details '0.4M Ammonium dihydrogen phosphate, oil batch, temperature 293K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'RIGAKU JUPITER 210' _diffrn_detector.pdbx_collection_date 2006-10-15 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator Si _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.97884 1.0 2 0.90000 1.0 3 0.97938 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SPRING-8 BEAMLINE BL26B2' _diffrn_source.pdbx_synchrotron_site SPring-8 _diffrn_source.pdbx_synchrotron_beamline BL26B2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.97884, 0.90000, 0.97938' # _reflns.entry_id 2YXB _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3 _reflns.d_resolution_high 1.8 _reflns.d_resolution_low 50 _reflns.number_all ? _reflns.number_obs 11582 _reflns.percent_possible_obs 99.8 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.067 _reflns.pdbx_netI_over_sigmaI 17.8 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.6 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.8 _reflns_shell.d_res_low 1.86 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.350 _reflns_shell.meanI_over_sigI_obs 2.6 _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 ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 2YXB _refine.ls_number_reflns_obs 10970 _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 37.27 _refine.ls_d_res_high 1.80 _refine.ls_percent_reflns_obs 99.56 _refine.ls_R_factor_obs 0.21373 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.21194 _refine.ls_R_factor_R_free 0.24713 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.8 _refine.ls_number_reflns_R_free 552 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.940 _refine.correlation_coeff_Fo_to_Fc_free 0.938 _refine.B_iso_mean 33.745 _refine.aniso_B[1][1] -0.79 _refine.aniso_B[2][2] 0.52 _refine.aniso_B[3][3] 0.27 _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 '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 MAD _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 0.166 _refine.pdbx_overall_ESU_R_Free 0.147 _refine.overall_SU_ML 0.106 _refine.overall_SU_B 3.421 _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_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 1074 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 79 _refine_hist.number_atoms_total 1153 _refine_hist.d_res_high 1.80 _refine_hist.d_res_low 37.27 # 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 0.033 0.022 ? 1087 'X-RAY DIFFRACTION' ? r_bond_other_d 0.002 0.020 ? 1089 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.166 2.000 ? 1461 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.002 3.000 ? 2512 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.365 5.000 ? 138 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.148 0.200 ? 170 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.009 0.020 ? 1194 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.004 0.020 ? 212 'X-RAY DIFFRACTION' ? r_nbd_refined 0.222 0.200 ? 231 'X-RAY DIFFRACTION' ? r_nbd_other 0.255 0.200 ? 1257 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other 0.092 0.200 ? 753 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.200 0.200 ? 57 '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 0.252 0.200 ? 6 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.219 0.200 ? 52 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.204 0.200 ? 12 '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 1.633 1.500 ? 688 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 2.888 2.000 ? 1102 'X-RAY DIFFRACTION' ? r_scbond_it 4.419 3.000 ? 399 'X-RAY DIFFRACTION' ? r_scangle_it 6.835 4.500 ? 359 '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 1.802 _refine_ls_shell.d_res_low 1.849 _refine_ls_shell.number_reflns_R_work 785 _refine_ls_shell.R_factor_R_work 0.237 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.269 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 36 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2YXB _struct.title 'Crystal structure of the methylmalonyl-CoA mutase alpha-subunit from Aeropyrum pernix' _struct.pdbx_descriptor 'Coenzyme B12-dependent mutase (E.C.5.4.99.2)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2YXB _struct_keywords.pdbx_keywords ISOMERASE _struct_keywords.text ;alpha/beta, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, ISOMERASE ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _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 32 ? ALA A 45 ? ASP A 34 ALA A 47 1 ? 14 HELX_P HELX_P2 2 THR A 57 ? GLU A 68 ? THR A 59 GLU A 70 1 ? 12 HELX_P HELX_P3 3 ALA A 81 ? LEU A 96 ? ALA A 83 LEU A 98 1 ? 16 HELX_P HELX_P4 4 PRO A 110 ? PRO A 112 ? PRO A 112 PRO A 114 5 ? 3 HELX_P HELX_P5 5 ASP A 113 ? LEU A 120 ? ASP A 115 LEU A 122 1 ? 8 HELX_P HELX_P6 6 SER A 131 ? ALA A 152 ? SER A 133 ALA A 154 1 ? 22 # _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 LYS 25 C ? ? ? 1_555 A MSE 26 N ? ? A LYS 27 A MSE 28 1_555 ? ? ? ? ? ? ? 1.326 ? covale2 covale ? ? A MSE 26 C ? ? ? 1_555 A GLY 27 N ? ? A MSE 28 A GLY 29 1_555 ? ? ? ? ? ? ? 1.318 ? covale3 covale ? ? A ALA 62 C ? ? ? 1_555 A MSE 63 N ? ? A ALA 64 A MSE 65 1_555 ? ? ? ? ? ? ? 1.333 ? covale4 covale ? ? A MSE 63 C ? ? ? 1_555 A ALA 64 N ? ? A MSE 65 A ALA 66 1_555 ? ? ? ? ? ? ? 1.310 ? covale5 covale ? ? A LEU 85 C ? ? ? 1_555 A MSE 86 N ? ? A LEU 87 A MSE 88 1_555 ? ? ? ? ? ? ? 1.315 ? covale6 covale ? ? A MSE 86 C ? ? ? 1_555 A LYS 87 N ? ? A MSE 88 A LYS 89 1_555 ? ? ? ? ? ? ? 1.340 ? covale7 covale ? ? A LEU 89 C ? ? ? 1_555 A MSE 90 N ? ? A LEU 91 A MSE 92 1_555 ? ? ? ? ? ? ? 1.319 ? covale8 covale ? ? A MSE 90 C ? ? ? 1_555 A ALA 91 N ? ? A MSE 92 A ALA 93 1_555 ? ? ? ? ? ? ? 1.337 ? covale9 covale ? ? A ARG 147 C ? ? ? 1_555 A MSE 148 N ? ? A ARG 149 A MSE 150 1_555 ? ? ? ? ? ? ? 1.317 ? covale10 covale ? ? A MSE 148 C ? ? ? 1_555 A ARG 149 N ? ? A MSE 150 A ARG 151 1_555 ? ? ? ? ? ? ? 1.335 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 5 _struct_sheet.details ? # 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 ? parallel A 2 3 ? parallel A 3 4 ? parallel A 4 5 ? 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 48 ? VAL A 50 ? GLU A 50 VAL A 52 A 2 LYS A 20 ? MSE A 26 ? LYS A 22 MSE A 28 A 3 VAL A 72 ? ILE A 77 ? VAL A 74 ILE A 79 A 4 VAL A 103 ? GLY A 107 ? VAL A 105 GLY A 109 A 5 GLU A 124 ? PHE A 126 ? GLU A 126 PHE A 128 # 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 GLU A 48 ? O GLU A 50 N VAL A 21 ? N VAL A 23 A 2 3 N LEU A 22 ? N LEU A 24 O GLY A 74 ? O GLY A 76 A 3 4 N VAL A 75 ? N VAL A 77 O GLY A 106 ? O GLY A 108 A 4 5 N LEU A 105 ? N LEU A 107 O PHE A 126 ? O PHE A 128 # _database_PDB_matrix.entry_id 2YXB _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 2YXB _atom_sites.fract_transf_matrix[1][1] 0.023309 _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] 0.019556 _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] 0.018327 _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 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 MSE 1 3 ? ? ? A . n A 1 2 SER 2 4 ? ? ? A . n A 1 3 SER 3 5 ? ? ? A . n A 1 4 LEU 4 6 ? ? ? A . n A 1 5 GLN 5 7 ? ? ? A . n A 1 6 SER 6 8 ? ? ? A . n A 1 7 THR 7 9 ? ? ? A . n A 1 8 ARG 8 10 ? ? ? A . n A 1 9 GLU 9 11 ? ? ? A . n A 1 10 ARG 10 12 ? ? ? A . n A 1 11 VAL 11 13 ? ? ? A . n A 1 12 LEU 12 14 ? ? ? A . n A 1 13 GLY 13 15 ? ? ? A . n A 1 14 THR 14 16 ? ? ? A . n A 1 15 PRO 15 17 ? ? ? A . n A 1 16 ARG 16 18 18 ARG ARG A . n A 1 17 ARG 17 19 19 ARG ARG A . n A 1 18 ARG 18 20 20 ARG ARG A . n A 1 19 TYR 19 21 21 TYR TYR A . n A 1 20 LYS 20 22 22 LYS LYS A . n A 1 21 VAL 21 23 23 VAL VAL A . n A 1 22 LEU 22 24 24 LEU LEU A . n A 1 23 VAL 23 25 25 VAL VAL A . n A 1 24 ALA 24 26 26 ALA ALA A . n A 1 25 LYS 25 27 27 LYS LYS A . n A 1 26 MSE 26 28 28 MSE MSE A . n A 1 27 GLY 27 29 29 GLY GLY A . n A 1 28 LEU 28 30 30 LEU LEU A . n A 1 29 ASP 29 31 31 ASP ASP A . n A 1 30 GLY 30 32 32 GLY GLY A . n A 1 31 HIS 31 33 33 HIS HIS A . n A 1 32 ASP 32 34 34 ASP ASP A . n A 1 33 ARG 33 35 35 ARG ARG A . n A 1 34 GLY 34 36 36 GLY GLY A . n A 1 35 ALA 35 37 37 ALA ALA A . n A 1 36 LYS 36 38 38 LYS LYS A . n A 1 37 VAL 37 39 39 VAL VAL A . n A 1 38 VAL 38 40 40 VAL VAL A . n A 1 39 ALA 39 41 41 ALA ALA A . n A 1 40 ARG 40 42 42 ARG ARG A . n A 1 41 ALA 41 43 43 ALA ALA A . n A 1 42 LEU 42 44 44 LEU LEU A . n A 1 43 ARG 43 45 45 ARG ARG A . n A 1 44 ASP 44 46 46 ASP ASP A . n A 1 45 ALA 45 47 47 ALA ALA A . n A 1 46 GLY 46 48 48 GLY GLY A . n A 1 47 PHE 47 49 49 PHE PHE A . n A 1 48 GLU 48 50 50 GLU GLU A . n A 1 49 VAL 49 51 51 VAL VAL A . n A 1 50 VAL 50 52 52 VAL VAL A . n A 1 51 TYR 51 53 53 TYR TYR A . n A 1 52 THR 52 54 54 THR THR A . n A 1 53 GLY 53 55 55 GLY GLY A . n A 1 54 LEU 54 56 56 LEU LEU A . n A 1 55 ARG 55 57 57 ARG ARG A . n A 1 56 GLN 56 58 58 GLN GLN A . n A 1 57 THR 57 59 59 THR THR A . n A 1 58 PRO 58 60 60 PRO PRO A . n A 1 59 GLU 59 61 61 GLU GLU A . n A 1 60 GLN 60 62 62 GLN GLN A . n A 1 61 VAL 61 63 63 VAL VAL A . n A 1 62 ALA 62 64 64 ALA ALA A . n A 1 63 MSE 63 65 65 MSE MSE A . n A 1 64 ALA 64 66 66 ALA ALA A . n A 1 65 ALA 65 67 67 ALA ALA A . n A 1 66 VAL 66 68 68 VAL VAL A . n A 1 67 GLN 67 69 69 GLN GLN A . n A 1 68 GLU 68 70 70 GLU GLU A . n A 1 69 ASP 69 71 71 ASP ASP A . n A 1 70 VAL 70 72 72 VAL VAL A . n A 1 71 ASP 71 73 73 ASP ASP A . n A 1 72 VAL 72 74 74 VAL VAL A . n A 1 73 ILE 73 75 75 ILE ILE A . n A 1 74 GLY 74 76 76 GLY GLY A . n A 1 75 VAL 75 77 77 VAL VAL A . n A 1 76 SER 76 78 78 SER SER A . n A 1 77 ILE 77 79 79 ILE ILE A . n A 1 78 LEU 78 80 80 LEU LEU A . n A 1 79 ASN 79 81 81 ASN ASN A . n A 1 80 GLY 80 82 82 GLY GLY A . n A 1 81 ALA 81 83 83 ALA ALA A . n A 1 82 HIS 82 84 84 HIS HIS A . n A 1 83 LEU 83 85 85 LEU LEU A . n A 1 84 HIS 84 86 86 HIS HIS A . n A 1 85 LEU 85 87 87 LEU LEU A . n A 1 86 MSE 86 88 88 MSE MSE A . n A 1 87 LYS 87 89 89 LYS LYS A . n A 1 88 ARG 88 90 90 ARG ARG A . n A 1 89 LEU 89 91 91 LEU LEU A . n A 1 90 MSE 90 92 92 MSE MSE A . n A 1 91 ALA 91 93 93 ALA ALA A . n A 1 92 LYS 92 94 94 LYS LYS A . n A 1 93 LEU 93 95 95 LEU LEU A . n A 1 94 ARG 94 96 96 ARG ARG A . n A 1 95 GLU 95 97 97 GLU GLU A . n A 1 96 LEU 96 98 98 LEU LEU A . n A 1 97 GLY 97 99 99 GLY GLY A . n A 1 98 ALA 98 100 100 ALA ALA A . n A 1 99 ASP 99 101 101 ASP ASP A . n A 1 100 ASP 100 102 102 ASP ASP A . n A 1 101 ILE 101 103 103 ILE ILE A . n A 1 102 PRO 102 104 104 PRO PRO A . n A 1 103 VAL 103 105 105 VAL VAL A . n A 1 104 VAL 104 106 106 VAL VAL A . n A 1 105 LEU 105 107 107 LEU LEU A . n A 1 106 GLY 106 108 108 GLY GLY A . n A 1 107 GLY 107 109 109 GLY GLY A . n A 1 108 THR 108 110 110 THR THR A . n A 1 109 ILE 109 111 111 ILE ILE A . n A 1 110 PRO 110 112 112 PRO PRO A . n A 1 111 ILE 111 113 113 ILE ILE A . n A 1 112 PRO 112 114 114 PRO PRO A . n A 1 113 ASP 113 115 115 ASP ASP A . n A 1 114 LEU 114 116 116 LEU LEU A . n A 1 115 GLU 115 117 117 GLU GLU A . n A 1 116 PRO 116 118 118 PRO PRO A . n A 1 117 LEU 117 119 119 LEU LEU A . n A 1 118 ARG 118 120 120 ARG ARG A . n A 1 119 SER 119 121 121 SER SER A . n A 1 120 LEU 120 122 122 LEU LEU A . n A 1 121 GLY 121 123 123 GLY GLY A . n A 1 122 ILE 122 124 124 ILE ILE A . n A 1 123 ARG 123 125 125 ARG ARG A . n A 1 124 GLU 124 126 126 GLU GLU A . n A 1 125 ILE 125 127 127 ILE ILE A . n A 1 126 PHE 126 128 128 PHE PHE A . n A 1 127 LEU 127 129 129 LEU LEU A . n A 1 128 PRO 128 130 130 PRO PRO A . n A 1 129 GLY 129 131 131 GLY GLY A . n A 1 130 THR 130 132 132 THR THR A . n A 1 131 SER 131 133 133 SER SER A . n A 1 132 LEU 132 134 134 LEU LEU A . n A 1 133 GLY 133 135 135 GLY GLY A . n A 1 134 GLU 134 136 136 GLU GLU A . n A 1 135 ILE 135 137 137 ILE ILE A . n A 1 136 ILE 136 138 138 ILE ILE A . n A 1 137 GLU 137 139 139 GLU GLU A . n A 1 138 LYS 138 140 140 LYS LYS A . n A 1 139 VAL 139 141 141 VAL VAL A . n A 1 140 ARG 140 142 142 ARG ARG A . n A 1 141 LYS 141 143 143 LYS LYS A . n A 1 142 LEU 142 144 144 LEU LEU A . n A 1 143 ALA 143 145 145 ALA ALA A . n A 1 144 GLU 144 146 146 GLU GLU A . n A 1 145 GLU 145 147 147 GLU GLU A . n A 1 146 LYS 146 148 148 LYS LYS A . n A 1 147 ARG 147 149 149 ARG ARG A . n A 1 148 MSE 148 150 150 MSE MSE A . n A 1 149 ARG 149 151 151 ARG ARG A . n A 1 150 GLU 150 152 152 GLU GLU A . n A 1 151 GLU 151 153 153 GLU GLU A . n A 1 152 ALA 152 154 154 ALA ALA A . n A 1 153 GLU 153 155 155 GLU GLU A . n A 1 154 ALA 154 156 156 ALA ALA A . n A 1 155 SER 155 157 ? ? ? A . n A 1 156 GLU 156 158 ? ? ? A . n A 1 157 GLN 157 159 ? ? ? A . n A 1 158 VAL 158 160 ? ? ? A . n A 1 159 GLY 159 161 ? ? ? A . n A 1 160 GLN 160 162 ? ? ? A . n A 1 161 ALA 161 163 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'NPPSFA, National Project on Protein Structural and Functional Analyses' _pdbx_SG_project.full_name_of_center 'RIKEN Structural Genomics/Proteomics Initiative' _pdbx_SG_project.initial_of_center RSGI # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 164 1 HOH HOH A . B 2 HOH 2 165 2 HOH HOH A . B 2 HOH 3 166 3 HOH HOH A . B 2 HOH 4 167 4 HOH HOH A . B 2 HOH 5 168 5 HOH HOH A . B 2 HOH 6 169 6 HOH HOH A . B 2 HOH 7 170 7 HOH HOH A . B 2 HOH 8 171 8 HOH HOH A . B 2 HOH 9 172 9 HOH HOH A . B 2 HOH 10 173 10 HOH HOH A . B 2 HOH 11 174 11 HOH HOH A . B 2 HOH 12 175 12 HOH HOH A . B 2 HOH 13 176 13 HOH HOH A . B 2 HOH 14 177 14 HOH HOH A . B 2 HOH 15 178 15 HOH HOH A . B 2 HOH 16 179 16 HOH HOH A . B 2 HOH 17 180 17 HOH HOH A . B 2 HOH 18 181 18 HOH HOH A . B 2 HOH 19 182 19 HOH HOH A . B 2 HOH 20 183 20 HOH HOH A . B 2 HOH 21 184 21 HOH HOH A . B 2 HOH 22 185 22 HOH HOH A . B 2 HOH 23 186 23 HOH HOH A . B 2 HOH 24 187 24 HOH HOH A . B 2 HOH 25 188 25 HOH HOH A . B 2 HOH 26 189 26 HOH HOH A . B 2 HOH 27 190 27 HOH HOH A . B 2 HOH 28 191 28 HOH HOH A . B 2 HOH 29 192 29 HOH HOH A . B 2 HOH 30 193 30 HOH HOH A . B 2 HOH 31 194 31 HOH HOH A . B 2 HOH 32 195 32 HOH HOH A . B 2 HOH 33 196 33 HOH HOH A . B 2 HOH 34 197 34 HOH HOH A . B 2 HOH 35 198 35 HOH HOH A . B 2 HOH 36 199 36 HOH HOH A . B 2 HOH 37 200 37 HOH HOH A . B 2 HOH 38 201 38 HOH HOH A . B 2 HOH 39 202 39 HOH HOH A . B 2 HOH 40 203 40 HOH HOH A . B 2 HOH 41 204 41 HOH HOH A . B 2 HOH 42 205 42 HOH HOH A . B 2 HOH 43 206 43 HOH HOH A . B 2 HOH 44 207 44 HOH HOH A . B 2 HOH 45 208 45 HOH HOH A . B 2 HOH 46 209 46 HOH HOH A . B 2 HOH 47 210 47 HOH HOH A . B 2 HOH 48 211 48 HOH HOH A . B 2 HOH 49 212 49 HOH HOH A . B 2 HOH 50 213 50 HOH HOH A . B 2 HOH 51 214 51 HOH HOH A . B 2 HOH 52 215 52 HOH HOH A . B 2 HOH 53 216 53 HOH HOH A . B 2 HOH 54 217 54 HOH HOH A . B 2 HOH 55 218 55 HOH HOH A . B 2 HOH 56 219 56 HOH HOH A . B 2 HOH 57 220 57 HOH HOH A . B 2 HOH 58 221 58 HOH HOH A . B 2 HOH 59 222 59 HOH HOH A . B 2 HOH 60 223 60 HOH HOH A . B 2 HOH 61 224 61 HOH HOH A . B 2 HOH 62 225 62 HOH HOH A . B 2 HOH 63 226 63 HOH HOH A . B 2 HOH 64 227 64 HOH HOH A . B 2 HOH 65 228 65 HOH HOH A . B 2 HOH 66 229 66 HOH HOH A . B 2 HOH 67 230 67 HOH HOH A . B 2 HOH 68 231 68 HOH HOH A . B 2 HOH 69 232 69 HOH HOH A . B 2 HOH 70 233 70 HOH HOH A . B 2 HOH 71 234 71 HOH HOH A . B 2 HOH 72 235 72 HOH HOH A . B 2 HOH 73 236 73 HOH HOH A . B 2 HOH 74 237 74 HOH HOH A . B 2 HOH 75 238 75 HOH HOH A . B 2 HOH 76 239 76 HOH HOH A . B 2 HOH 77 240 77 HOH HOH A . B 2 HOH 78 241 78 HOH HOH A . B 2 HOH 79 242 79 HOH HOH A . # 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 26 A MSE 28 ? MET SELENOMETHIONINE 2 A MSE 63 A MSE 65 ? MET SELENOMETHIONINE 3 A MSE 86 A MSE 88 ? MET SELENOMETHIONINE 4 A MSE 90 A MSE 92 ? MET SELENOMETHIONINE 5 A MSE 148 A MSE 150 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2007-10-30 2 'Structure model' 1 1 2011-07-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # 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' 'Source and taxonomy' 2 2 'Structure model' 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.1.24 ? 1 HKL-2000 'data collection' . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 SOLVE phasing . ? 5 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 CE2 A TYR 53 ? ? CD2 A TYR 53 ? ? 1.297 1.389 -0.092 0.015 N 2 1 SE A MSE 88 ? ? CE A MSE 88 ? ? 1.556 1.950 -0.394 0.059 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 CB A ASP 31 ? ? CG A ASP 31 ? ? OD2 A ASP 31 ? ? 124.52 118.30 6.22 0.90 N 2 1 CB A ASP 34 ? ? CG A ASP 34 ? ? OD2 A ASP 34 ? ? 124.59 118.30 6.29 0.90 N 3 1 NE A ARG 42 ? ? CZ A ARG 42 ? ? NH2 A ARG 42 ? ? 116.88 120.30 -3.42 0.50 N 4 1 NE A ARG 151 ? ? CZ A ARG 151 ? ? NH1 A ARG 151 ? ? 123.75 120.30 3.45 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 ARG A 19 ? ? 46.54 -146.57 2 1 ALA A 154 ? ? -98.46 40.72 # 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 MSE 3 ? A MSE 1 2 1 Y 1 A SER 4 ? A SER 2 3 1 Y 1 A SER 5 ? A SER 3 4 1 Y 1 A LEU 6 ? A LEU 4 5 1 Y 1 A GLN 7 ? A GLN 5 6 1 Y 1 A SER 8 ? A SER 6 7 1 Y 1 A THR 9 ? A THR 7 8 1 Y 1 A ARG 10 ? A ARG 8 9 1 Y 1 A GLU 11 ? A GLU 9 10 1 Y 1 A ARG 12 ? A ARG 10 11 1 Y 1 A VAL 13 ? A VAL 11 12 1 Y 1 A LEU 14 ? A LEU 12 13 1 Y 1 A GLY 15 ? A GLY 13 14 1 Y 1 A THR 16 ? A THR 14 15 1 Y 1 A PRO 17 ? A PRO 15 16 1 Y 1 A SER 157 ? A SER 155 17 1 Y 1 A GLU 158 ? A GLU 156 18 1 Y 1 A GLN 159 ? A GLN 157 19 1 Y 1 A VAL 160 ? A VAL 158 20 1 Y 1 A GLY 161 ? A GLY 159 21 1 Y 1 A GLN 162 ? A GLN 160 22 1 Y 1 A ALA 163 ? A ALA 161 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #