data_2PKS # _entry.id 2PKS # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.286 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2PKS RCSB RCSB042485 WWPDB D_1000042485 # _pdbx_database_status.entry_id 2PKS _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-04-18 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? # _audit_author.name 'Xue, Y.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Design, synthesis and biological evaluation of thrombin inhibitors based on a pyridine scaffold.' _citation.journal_abbrev Org.Biomol.Chem. _citation.journal_volume 5 _citation.page_first 2599 _citation.page_last 2605 _citation.year 2007 _citation.journal_id_ASTM ? _citation.country UK _citation.journal_id_ISSN 1477-0520 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18019535 _citation.pdbx_database_id_DOI 10.1039/b705344d # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Blomberg, D.' 1 primary 'Fex, T.' 2 primary 'Xue, Y.' 3 primary 'Brickmann, K.' 4 primary 'Kihlberg, J.' 5 # _cell.entry_id 2PKS _cell.length_a 69.942 _cell.length_b 71.843 _cell.length_c 70.778 _cell.angle_alpha 90.000 _cell.angle_beta 100.230 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _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 2PKS _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.Int_Tables_number 5 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer nat 'Thrombin light chain' 3188.627 1 ? ? 'Residues 335-361' ? 2 polymer nat 'Thrombin heavy chain fragment' 17070.738 1 ? ? 'Residues 364-510' ? 3 polymer nat 'Thrombin heavy chain fragment' 11636.286 1 ? ? 'Residues 518-619' ? 4 polymer syn Hirudin 1291.337 1 ? ? ? ? 5 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 6 non-polymer syn '4-({[4-(3-METHYLBENZOYL)PYRIDIN-2-YL]AMINO}METHYL)BENZENECARBOXIMIDAMIDE' 344.410 1 ? ? ? ? 7 water nat water 18.015 47 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ADCGLRPLFEKKSLEDKTERELLESYI ADCGLRPLFEKKSLEDKTERELLESYI A ? 2 'polypeptide(L)' no no ;IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKET ; ;IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKET ; B ? 3 'polypeptide(L)' no no ;GQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRD GKYGFYTHVFRLKKWIQKVIDQ ; ;GQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRD GKYGFYTHVFRLKKWIQKVIDQ ; C ? 4 'polypeptide(L)' no yes 'DFEEIPGE(TYS)L' DFEEIPGEYL D ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ALA n 1 2 ASP n 1 3 CYS n 1 4 GLY n 1 5 LEU n 1 6 ARG n 1 7 PRO n 1 8 LEU n 1 9 PHE n 1 10 GLU n 1 11 LYS n 1 12 LYS n 1 13 SER n 1 14 LEU n 1 15 GLU n 1 16 ASP n 1 17 LYS n 1 18 THR n 1 19 GLU n 1 20 ARG n 1 21 GLU n 1 22 LEU n 1 23 LEU n 1 24 GLU n 1 25 SER n 1 26 TYR n 1 27 ILE n 2 1 ILE n 2 2 VAL n 2 3 GLU n 2 4 GLY n 2 5 SER n 2 6 ASP n 2 7 ALA n 2 8 GLU n 2 9 ILE n 2 10 GLY n 2 11 MET n 2 12 SER n 2 13 PRO n 2 14 TRP n 2 15 GLN n 2 16 VAL n 2 17 MET n 2 18 LEU n 2 19 PHE n 2 20 ARG n 2 21 LYS n 2 22 SER n 2 23 PRO n 2 24 GLN n 2 25 GLU n 2 26 LEU n 2 27 LEU n 2 28 CYS n 2 29 GLY n 2 30 ALA n 2 31 SER n 2 32 LEU n 2 33 ILE n 2 34 SER n 2 35 ASP n 2 36 ARG n 2 37 TRP n 2 38 VAL n 2 39 LEU n 2 40 THR n 2 41 ALA n 2 42 ALA n 2 43 HIS n 2 44 CYS n 2 45 LEU n 2 46 LEU n 2 47 TYR n 2 48 PRO n 2 49 PRO n 2 50 TRP n 2 51 ASP n 2 52 LYS n 2 53 ASN n 2 54 PHE n 2 55 THR n 2 56 GLU n 2 57 ASN n 2 58 ASP n 2 59 LEU n 2 60 LEU n 2 61 VAL n 2 62 ARG n 2 63 ILE n 2 64 GLY n 2 65 LYS n 2 66 HIS n 2 67 SER n 2 68 ARG n 2 69 THR n 2 70 ARG n 2 71 TYR n 2 72 GLU n 2 73 ARG n 2 74 ASN n 2 75 ILE n 2 76 GLU n 2 77 LYS n 2 78 ILE n 2 79 SER n 2 80 MET n 2 81 LEU n 2 82 GLU n 2 83 LYS n 2 84 ILE n 2 85 TYR n 2 86 ILE n 2 87 HIS n 2 88 PRO n 2 89 ARG n 2 90 TYR n 2 91 ASN n 2 92 TRP n 2 93 ARG n 2 94 GLU n 2 95 ASN n 2 96 LEU n 2 97 ASP n 2 98 ARG n 2 99 ASP n 2 100 ILE n 2 101 ALA n 2 102 LEU n 2 103 MET n 2 104 LYS n 2 105 LEU n 2 106 LYS n 2 107 LYS n 2 108 PRO n 2 109 VAL n 2 110 ALA n 2 111 PHE n 2 112 SER n 2 113 ASP n 2 114 TYR n 2 115 ILE n 2 116 HIS n 2 117 PRO n 2 118 VAL n 2 119 CYS n 2 120 LEU n 2 121 PRO n 2 122 ASP n 2 123 ARG n 2 124 GLU n 2 125 THR n 2 126 ALA n 2 127 ALA n 2 128 SER n 2 129 LEU n 2 130 LEU n 2 131 GLN n 2 132 ALA n 2 133 GLY n 2 134 TYR n 2 135 LYS n 2 136 GLY n 2 137 ARG n 2 138 VAL n 2 139 THR n 2 140 GLY n 2 141 TRP n 2 142 GLY n 2 143 ASN n 2 144 LEU n 2 145 LYS n 2 146 GLU n 2 147 THR n 3 1 GLY n 3 2 GLN n 3 3 PRO n 3 4 SER n 3 5 VAL n 3 6 LEU n 3 7 GLN n 3 8 VAL n 3 9 VAL n 3 10 ASN n 3 11 LEU n 3 12 PRO n 3 13 ILE n 3 14 VAL n 3 15 GLU n 3 16 ARG n 3 17 PRO n 3 18 VAL n 3 19 CYS n 3 20 LYS n 3 21 ASP n 3 22 SER n 3 23 THR n 3 24 ARG n 3 25 ILE n 3 26 ARG n 3 27 ILE n 3 28 THR n 3 29 ASP n 3 30 ASN n 3 31 MET n 3 32 PHE n 3 33 CYS n 3 34 ALA n 3 35 GLY n 3 36 TYR n 3 37 LYS n 3 38 PRO n 3 39 ASP n 3 40 GLU n 3 41 GLY n 3 42 LYS n 3 43 ARG n 3 44 GLY n 3 45 ASP n 3 46 ALA n 3 47 CYS n 3 48 GLU n 3 49 GLY n 3 50 ASP n 3 51 SER n 3 52 GLY n 3 53 GLY n 3 54 PRO n 3 55 PHE n 3 56 VAL n 3 57 MET n 3 58 LYS n 3 59 SER n 3 60 PRO n 3 61 PHE n 3 62 ASN n 3 63 ASN n 3 64 ARG n 3 65 TRP n 3 66 TYR n 3 67 GLN n 3 68 MET n 3 69 GLY n 3 70 ILE n 3 71 VAL n 3 72 SER n 3 73 TRP n 3 74 GLY n 3 75 GLU n 3 76 GLY n 3 77 CYS n 3 78 ASP n 3 79 ARG n 3 80 ASP n 3 81 GLY n 3 82 LYS n 3 83 TYR n 3 84 GLY n 3 85 PHE n 3 86 TYR n 3 87 THR n 3 88 HIS n 3 89 VAL n 3 90 PHE n 3 91 ARG n 3 92 LEU n 3 93 LYS n 3 94 LYS n 3 95 TRP n 3 96 ILE n 3 97 GLN n 3 98 LYS n 3 99 VAL n 3 100 ILE n 3 101 ASP n 3 102 GLN n 4 1 ASP n 4 2 PHE n 4 3 GLU n 4 4 GLU n 4 5 ILE n 4 6 PRO n 4 7 GLY n 4 8 GLU n 4 9 TYS n 4 10 LEU n # loop_ _entity_src_nat.entity_id _entity_src_nat.pdbx_src_id _entity_src_nat.pdbx_alt_source_flag _entity_src_nat.pdbx_beg_seq_num _entity_src_nat.pdbx_end_seq_num _entity_src_nat.common_name _entity_src_nat.pdbx_organism_scientific _entity_src_nat.pdbx_ncbi_taxonomy_id _entity_src_nat.genus _entity_src_nat.species _entity_src_nat.strain _entity_src_nat.tissue _entity_src_nat.tissue_fraction _entity_src_nat.pdbx_secretion _entity_src_nat.pdbx_fragment _entity_src_nat.pdbx_variant _entity_src_nat.pdbx_cell_line _entity_src_nat.pdbx_atcc _entity_src_nat.pdbx_cellular_location _entity_src_nat.pdbx_organ _entity_src_nat.pdbx_organelle _entity_src_nat.pdbx_cell _entity_src_nat.pdbx_plasmid_name _entity_src_nat.pdbx_plasmid_details _entity_src_nat.details 1 1 sample ? ? human 'Homo sapiens' ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? human 'Homo sapiens' ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 3 1 sample ? ? human 'Homo sapiens' ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _pdbx_entity_src_syn.entity_id 4 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Chemically synthesized.' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP THRB_HUMAN P00734 1 ADCGLRPLFEKKSLEDKTERELLESYI 334 ? 2 UNP THRB_HUMAN P00734 2 ;IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPWDKNFTENDLLVRIGKHSRTRYERNIEKISM LEKIYIHPRYNWRENLDRDIALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKET ; 364 ? 3 UNP THRB_HUMAN P00734 3 ;GQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRD GKYGFYTHVFRLKKWIQKVIDQ ; 518 ? 4 UNP HIR2_HIRME P28504 4 DFEEIPEEYL 55 ? # 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 2PKS A 1 ? 27 ? P00734 334 ? 360 ? 7 33 2 2 2PKS B 1 ? 147 ? P00734 364 ? 510 ? 37 183 3 3 2PKS C 1 ? 102 ? P00734 518 ? 619 ? 185 286 4 4 2PKS D 1 ? 10 ? P28504 55 ? 64 ? 355 364 # _struct_ref_seq_dif.align_id 4 _struct_ref_seq_dif.pdbx_pdb_id_code 2PKS _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id D _struct_ref_seq_dif.seq_num 7 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P28504 _struct_ref_seq_dif.db_mon_id GLU _struct_ref_seq_dif.pdbx_seq_db_seq_num 61 _struct_ref_seq_dif.details CONFLICT _struct_ref_seq_dif.pdbx_auth_seq_num 361 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 G44 non-polymer . '4-({[4-(3-METHYLBENZOYL)PYRIDIN-2-YL]AMINO}METHYL)BENZENECARBOXIMIDAMIDE' ? 'C21 H20 N4 O' 344.410 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 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 TYS 'L-peptide linking' n O-SULFO-L-TYROSINE ? 'C9 H11 N O6 S' 261.252 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.entry_id 2PKS _exptl.method 'X-RAY DIFFRACTION' # loop_ _exptl_crystal.id _exptl_crystal.density_percent_sol _exptl_crystal.density_Matthews _exptl_crystal.density_meas _exptl_crystal.description _exptl_crystal.F_000 _exptl_crystal.preparation 1 53.3 2.7 ? ? ? ? 2 53.3 2.7 ? ? ? ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 7.3 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details '27% PEG8000, 0.1M SODIUM PHOSPHATE, PH 7.3, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 ? ? 1 1,2 ? ? 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.monochromator _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.pdbx_scattering_type 1 'SINGLE WAVELENGTH' MIRRORS 1 M x-ray 2 'SINGLE WAVELENGTH' ? 1 M x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type RIGAKU _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? # _reflns.entry_id 2PKS _reflns.observed_criterion_sigma_F 1 _reflns.observed_criterion_sigma_I 1 _reflns.d_resolution_high 2.5 _reflns.d_resolution_low 69.673 _reflns.number_all 25416 _reflns.number_obs 10962 _reflns.percent_possible_obs 91.100 _reflns.pdbx_Rmerge_I_obs 0.086 _reflns.pdbx_Rsym_value 0.086 _reflns.pdbx_netI_over_sigmaI 6.7 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.3 _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 1,2 # _reflns_shell.d_res_high 2.5 _reflns_shell.d_res_low 2.57 _reflns_shell.percent_possible_obs ? _reflns_shell.percent_possible_all 93.9 _reflns_shell.Rmerge_I_obs 0.526 _reflns_shell.meanI_over_sigI_obs 1.8 _reflns_shell.pdbx_Rsym_value 0.423 _reflns_shell.pdbx_redundancy 2.2 _reflns_shell.number_unique_all 823 _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 1,2 # _refine.entry_id 2PKS _refine.ls_d_res_high 2.500 _refine.ls_d_res_low 69.670 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 87.690 _refine.ls_number_reflns_obs 10553 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.ls_R_factor_all 0.188 _refine.ls_R_factor_R_work 0.185 _refine.ls_R_factor_R_free 0.259 _refine.ls_percent_reflns_R_free 4.800 _refine.ls_number_reflns_R_free 502 _refine.B_iso_mean 41.912 _refine.aniso_B[1][1] 0.200 _refine.aniso_B[2][2] -2.350 _refine.aniso_B[3][3] 1.190 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] -2.720 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.947 _refine.correlation_coeff_Fo_to_Fc_free 0.897 _refine.pdbx_overall_ESU_R 1.135 _refine.pdbx_overall_ESU_R_Free 0.336 _refine.overall_SU_ML 0.220 _refine.overall_SU_B 9.701 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.400 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_obs ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_overall_phase_error ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2327 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 27 _refine_hist.number_atoms_solvent 47 _refine_hist.number_atoms_total 2401 _refine_hist.d_res_high 2.500 _refine_hist.d_res_low 69.670 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 2414 0.019 0.022 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 3262 1.915 1.985 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 282 7.528 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 113 37.127 23.451 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 426 19.153 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 20 16.851 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 334 0.125 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1844 0.008 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 1103 0.250 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 1559 0.315 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 133 0.176 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 29 0.244 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1422 1.017 1.500 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 2294 1.894 2.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 1046 2.528 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 968 4.046 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.500 _refine_ls_shell.d_res_low 2.565 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 84.670 _refine_ls_shell.number_reflns_R_work 707 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.245 _refine_ls_shell.R_factor_R_free 0.335 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 33 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs 740 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2PKS _struct.title 'Thrombin in complex with inhibitor' _struct.pdbx_descriptor 'Thrombin in complex with inhibitor' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2PKS _struct_keywords.text 'Inhibitor complex, thrombin inhibitor, HYDROLASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX' _struct_keywords.pdbx_keywords 'HYDROLASE/HYDROLASE INHIBITOR' # 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 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 6 ? G N N 7 ? H N N 7 ? I N N 7 ? # _struct_biol.id 1 _struct_biol.details 'the monomer present in the asymmetric unit is the biological unit' # 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 PHE A 9 ? SER A 13 ? PHE A 15 SER A 19 5 ? 5 HELX_P HELX_P2 2 THR A 18 ? TYR A 26 ? THR A 24 TYR A 32 1 ? 9 HELX_P HELX_P3 3 ALA B 41 ? CYS B 44 ? ALA B 77 CYS B 80 5 ? 4 HELX_P HELX_P4 4 PRO B 48 ? ASP B 51 ? PRO B 84 ASP B 87 5 ? 4 HELX_P HELX_P5 5 THR B 55 ? ASN B 57 ? THR B 91 ASN B 93 5 ? 3 HELX_P HELX_P6 6 ASP B 122 ? LEU B 130 ? ASP B 158 LEU B 166 1 ? 9 HELX_P HELX_P7 7 GLU C 15 ? ASP C 21 ? GLU C 199 ASP C 205 1 ? 7 HELX_P HELX_P8 8 LEU C 92 ? GLN C 102 ? LEU C 276 GLN C 286 1 ? 11 HELX_P HELX_P9 9 PRO D 6 ? LEU D 10 ? PRO D 360 LEU D 364 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 disulf1 disulf ? ? A CYS 3 SG ? ? ? 1_555 B CYS 119 SG ? ? A CYS 9 B CYS 155 1_555 ? ? ? ? ? ? ? 2.049 ? disulf2 disulf ? ? B CYS 28 SG ? ? ? 1_555 B CYS 44 SG ? ? B CYS 64 B CYS 80 1_555 ? ? ? ? ? ? ? 2.001 ? disulf3 disulf ? ? C CYS 19 SG ? ? ? 1_555 C CYS 33 SG ? ? C CYS 203 C CYS 217 1_555 ? ? ? ? ? ? ? 2.009 ? disulf4 disulf ? ? C CYS 47 SG ? ? ? 1_555 C CYS 77 SG ? ? C CYS 231 C CYS 261 1_555 ? ? ? ? ? ? ? 2.022 ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 8 ? B ? 7 ? C ? 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 A 6 7 ? anti-parallel A 7 8 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel B 4 5 ? anti-parallel B 5 6 ? anti-parallel B 6 7 ? anti-parallel C 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 SER B 5 ? ASP B 6 ? SER B 41 ASP B 42 A 2 GLN C 7 ? VAL C 14 ? GLN C 191 VAL C 198 A 3 MET C 31 ? ALA C 34 ? MET C 215 ALA C 218 A 4 GLY C 84 ? HIS C 88 ? GLY C 268 HIS C 272 A 5 TRP C 65 ? TRP C 73 ? TRP C 249 TRP C 257 A 6 PRO C 54 ? LYS C 58 ? PRO C 238 LYS C 242 A 7 LYS B 135 ? GLY B 140 ? LYS B 171 GLY B 176 A 8 GLN C 7 ? VAL C 14 ? GLN C 191 VAL C 198 B 1 GLN B 15 ? ARG B 20 ? GLN B 51 ARG B 56 B 2 GLU B 25 ? LEU B 32 ? GLU B 61 LEU B 68 B 3 TRP B 37 ? THR B 40 ? TRP B 73 THR B 76 B 4 ALA B 101 ? LEU B 105 ? ALA B 137 LEU B 141 B 5 LYS B 77 ? ILE B 86 ? LYS B 113 ILE B 122 B 6 LEU B 59 ? ILE B 63 ? LEU B 95 ILE B 99 B 7 GLN B 15 ? ARG B 20 ? GLN B 51 ARG B 56 C 1 LEU B 46 ? TYR B 47 ? LEU B 82 TYR B 83 C 2 LYS B 52 ? ASN B 53 ? LYS B 88 ASN B 89 # 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 SER B 5 ? N SER B 41 O VAL C 8 ? O VAL C 192 A 2 3 N VAL C 14 ? N VAL C 198 O CYS C 33 ? O CYS C 217 A 3 4 N PHE C 32 ? N PHE C 216 O TYR C 86 ? O TYR C 270 A 4 5 O PHE C 85 ? O PHE C 269 N TRP C 73 ? N TRP C 257 A 5 6 O TYR C 66 ? O TYR C 250 N MET C 57 ? N MET C 241 A 6 7 O VAL C 56 ? O VAL C 240 N ARG B 137 ? N ARG B 173 A 7 8 N GLY B 140 ? N GLY B 176 O GLN C 7 ? O GLN C 191 B 1 2 N LEU B 18 ? N LEU B 54 O LEU B 27 ? O LEU B 63 B 2 3 N SER B 31 ? N SER B 67 O LEU B 39 ? O LEU B 75 B 3 4 N VAL B 38 ? N VAL B 74 O MET B 103 ? O MET B 139 B 4 5 O LYS B 104 ? O LYS B 140 N GLU B 82 ? N GLU B 118 B 5 6 O LYS B 77 ? O LYS B 113 N ILE B 63 ? N ILE B 99 B 6 7 O LEU B 60 ? O LEU B 96 N PHE B 19 ? N PHE B 55 C 1 2 N TYR B 47 ? N TYR B 83 O LYS B 52 ? O LYS B 88 # 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 ? ? ? ? 4 'BINDING SITE FOR RESIDUE NA C 402' AC2 Software ? ? ? ? 12 'BINDING SITE FOR RESIDUE G44 C 101' AC3 Software ? ? ? ? 11 'BINDING SITE FOR CHAIN D OF HIRUDIN' # 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 4 ARG C 79 ? ARG C 263 . ? 1_555 ? 2 AC1 4 LYS C 82 ? LYS C 266 . ? 1_555 ? 3 AC1 4 HOH I . ? HOH C 406 . ? 1_555 ? 4 AC1 4 HOH I . ? HOH C 413 . ? 1_555 ? 5 AC2 12 TRP B 50 ? TRP B 86 . ? 1_555 ? 6 AC2 12 ILE C 25 ? ILE C 209 . ? 1_555 ? 7 AC2 12 ASP C 45 ? ASP C 229 . ? 1_555 ? 8 AC2 12 ALA C 46 ? ALA C 230 . ? 1_555 ? 9 AC2 12 SER C 51 ? SER C 235 . ? 1_555 ? 10 AC2 12 SER C 72 ? SER C 256 . ? 1_555 ? 11 AC2 12 TRP C 73 ? TRP C 257 . ? 1_555 ? 12 AC2 12 GLY C 74 ? GLY C 258 . ? 1_555 ? 13 AC2 12 GLY C 76 ? GLY C 260 . ? 1_555 ? 14 AC2 12 GLY C 84 ? GLY C 268 . ? 1_555 ? 15 AC2 12 HOH I . ? HOH C 405 . ? 1_555 ? 16 AC2 12 HOH I . ? HOH C 408 . ? 1_555 ? 17 AC3 11 PHE B 19 ? PHE B 55 . ? 1_555 ? 18 AC3 11 GLN B 24 ? GLN B 60 . ? 1_555 ? 19 AC3 11 LEU B 60 ? LEU B 96 . ? 1_555 ? 20 AC3 11 ARG B 62 ? ARG B 98 . ? 1_555 ? 21 AC3 11 ARG B 68 ? ARG B 104 . ? 1_555 ? 22 AC3 11 THR B 69 ? THR B 105 . ? 1_555 ? 23 AC3 11 ARG B 70 ? ARG B 106 . ? 1_555 ? 24 AC3 11 TYR B 71 ? TYR B 107 . ? 1_555 ? 25 AC3 11 GLU B 76 ? GLU B 112 . ? 1_555 ? 26 AC3 11 LYS B 77 ? LYS B 113 . ? 1_555 ? 27 AC3 11 ILE B 78 ? ILE B 114 . ? 1_555 ? # _atom_sites.entry_id 2PKS _atom_sites.fract_transf_matrix[1][1] 0.014298 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002580 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.013919 _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] 0.014357 _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 NA O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ALA 1 7 7 ALA ALA A . n A 1 2 ASP 2 8 8 ASP ASP A . n A 1 3 CYS 3 9 9 CYS CYS A . n A 1 4 GLY 4 10 10 GLY GLY A . n A 1 5 LEU 5 11 11 LEU LEU A . n A 1 6 ARG 6 12 12 ARG ARG A . n A 1 7 PRO 7 13 13 PRO PRO A . n A 1 8 LEU 8 14 14 LEU LEU A . n A 1 9 PHE 9 15 15 PHE PHE A . n A 1 10 GLU 10 16 16 GLU GLU A . n A 1 11 LYS 11 17 17 LYS LYS A . n A 1 12 LYS 12 18 18 LYS LYS A . n A 1 13 SER 13 19 19 SER SER A . n A 1 14 LEU 14 20 20 LEU LEU A . n A 1 15 GLU 15 21 21 GLU GLU A . n A 1 16 ASP 16 22 22 ASP ASP A . n A 1 17 LYS 17 23 23 LYS LYS A . n A 1 18 THR 18 24 24 THR THR A . n A 1 19 GLU 19 25 25 GLU GLU A . n A 1 20 ARG 20 26 26 ARG ARG A . n A 1 21 GLU 21 27 27 GLU GLU A . n A 1 22 LEU 22 28 28 LEU LEU A . n A 1 23 LEU 23 29 29 LEU LEU A . n A 1 24 GLU 24 30 30 GLU GLU A . n A 1 25 SER 25 31 31 SER SER A . n A 1 26 TYR 26 32 32 TYR TYR A . n A 1 27 ILE 27 33 33 ILE ILE A . n B 2 1 ILE 1 37 37 ILE ILE B . n B 2 2 VAL 2 38 38 VAL VAL B . n B 2 3 GLU 3 39 39 GLU GLU B . n B 2 4 GLY 4 40 40 GLY GLY B . n B 2 5 SER 5 41 41 SER SER B . n B 2 6 ASP 6 42 42 ASP ASP B . n B 2 7 ALA 7 43 43 ALA ALA B . n B 2 8 GLU 8 44 44 GLU GLU B . n B 2 9 ILE 9 45 45 ILE ILE B . n B 2 10 GLY 10 46 46 GLY GLY B . n B 2 11 MET 11 47 47 MET MET B . n B 2 12 SER 12 48 48 SER SER B . n B 2 13 PRO 13 49 49 PRO PRO B . n B 2 14 TRP 14 50 50 TRP TRP B . n B 2 15 GLN 15 51 51 GLN GLN B . n B 2 16 VAL 16 52 52 VAL VAL B . n B 2 17 MET 17 53 53 MET MET B . n B 2 18 LEU 18 54 54 LEU LEU B . n B 2 19 PHE 19 55 55 PHE PHE B . n B 2 20 ARG 20 56 56 ARG ARG B . n B 2 21 LYS 21 57 57 LYS LYS B . n B 2 22 SER 22 58 58 SER SER B . n B 2 23 PRO 23 59 59 PRO PRO B . n B 2 24 GLN 24 60 60 GLN GLN B . n B 2 25 GLU 25 61 61 GLU GLU B . n B 2 26 LEU 26 62 62 LEU LEU B . n B 2 27 LEU 27 63 63 LEU LEU B . n B 2 28 CYS 28 64 64 CYS CYS B . n B 2 29 GLY 29 65 65 GLY GLY B . n B 2 30 ALA 30 66 66 ALA ALA B . n B 2 31 SER 31 67 67 SER SER B . n B 2 32 LEU 32 68 68 LEU LEU B . n B 2 33 ILE 33 69 69 ILE ILE B . n B 2 34 SER 34 70 70 SER SER B . n B 2 35 ASP 35 71 71 ASP ASP B . n B 2 36 ARG 36 72 72 ARG ARG B . n B 2 37 TRP 37 73 73 TRP TRP B . n B 2 38 VAL 38 74 74 VAL VAL B . n B 2 39 LEU 39 75 75 LEU LEU B . n B 2 40 THR 40 76 76 THR THR B . n B 2 41 ALA 41 77 77 ALA ALA B . n B 2 42 ALA 42 78 78 ALA ALA B . n B 2 43 HIS 43 79 79 HIS HIS B . n B 2 44 CYS 44 80 80 CYS CYS B . n B 2 45 LEU 45 81 81 LEU LEU B . n B 2 46 LEU 46 82 82 LEU LEU B . n B 2 47 TYR 47 83 83 TYR TYR B . n B 2 48 PRO 48 84 84 PRO PRO B . n B 2 49 PRO 49 85 85 PRO PRO B . n B 2 50 TRP 50 86 86 TRP TRP B . n B 2 51 ASP 51 87 87 ASP ASP B . n B 2 52 LYS 52 88 88 LYS LYS B . n B 2 53 ASN 53 89 89 ASN ASN B . n B 2 54 PHE 54 90 90 PHE PHE B . n B 2 55 THR 55 91 91 THR THR B . n B 2 56 GLU 56 92 92 GLU GLU B . n B 2 57 ASN 57 93 93 ASN ASN B . n B 2 58 ASP 58 94 94 ASP ASP B . n B 2 59 LEU 59 95 95 LEU LEU B . n B 2 60 LEU 60 96 96 LEU LEU B . n B 2 61 VAL 61 97 97 VAL VAL B . n B 2 62 ARG 62 98 98 ARG ARG B . n B 2 63 ILE 63 99 99 ILE ILE B . n B 2 64 GLY 64 100 100 GLY GLY B . n B 2 65 LYS 65 101 101 LYS LYS B . n B 2 66 HIS 66 102 102 HIS HIS B . n B 2 67 SER 67 103 103 SER SER B . n B 2 68 ARG 68 104 104 ARG ARG B . n B 2 69 THR 69 105 105 THR THR B . n B 2 70 ARG 70 106 106 ARG ARG B . n B 2 71 TYR 71 107 107 TYR TYR B . n B 2 72 GLU 72 108 108 GLU GLU B . n B 2 73 ARG 73 109 109 ARG ARG B . n B 2 74 ASN 74 110 110 ASN ASN B . n B 2 75 ILE 75 111 111 ILE ILE B . n B 2 76 GLU 76 112 112 GLU GLU B . n B 2 77 LYS 77 113 113 LYS LYS B . n B 2 78 ILE 78 114 114 ILE ILE B . n B 2 79 SER 79 115 115 SER SER B . n B 2 80 MET 80 116 116 MET MET B . n B 2 81 LEU 81 117 117 LEU LEU B . n B 2 82 GLU 82 118 118 GLU GLU B . n B 2 83 LYS 83 119 119 LYS LYS B . n B 2 84 ILE 84 120 120 ILE ILE B . n B 2 85 TYR 85 121 121 TYR TYR B . n B 2 86 ILE 86 122 122 ILE ILE B . n B 2 87 HIS 87 123 123 HIS HIS B . n B 2 88 PRO 88 124 124 PRO PRO B . n B 2 89 ARG 89 125 125 ARG ARG B . n B 2 90 TYR 90 126 126 TYR TYR B . n B 2 91 ASN 91 127 127 ASN ASN B . n B 2 92 TRP 92 128 128 TRP TRP B . n B 2 93 ARG 93 129 129 ARG ARG B . n B 2 94 GLU 94 130 130 GLU GLU B . n B 2 95 ASN 95 131 131 ASN ASN B . n B 2 96 LEU 96 132 132 LEU LEU B . n B 2 97 ASP 97 133 133 ASP ASP B . n B 2 98 ARG 98 134 134 ARG ARG B . n B 2 99 ASP 99 135 135 ASP ASP B . n B 2 100 ILE 100 136 136 ILE ILE B . n B 2 101 ALA 101 137 137 ALA ALA B . n B 2 102 LEU 102 138 138 LEU LEU B . n B 2 103 MET 103 139 139 MET MET B . n B 2 104 LYS 104 140 140 LYS LYS B . n B 2 105 LEU 105 141 141 LEU LEU B . n B 2 106 LYS 106 142 142 LYS LYS B . n B 2 107 LYS 107 143 143 LYS LYS B . n B 2 108 PRO 108 144 144 PRO PRO B . n B 2 109 VAL 109 145 145 VAL VAL B . n B 2 110 ALA 110 146 146 ALA ALA B . n B 2 111 PHE 111 147 147 PHE PHE B . n B 2 112 SER 112 148 148 SER SER B . n B 2 113 ASP 113 149 149 ASP ASP B . n B 2 114 TYR 114 150 150 TYR TYR B . n B 2 115 ILE 115 151 151 ILE ILE B . n B 2 116 HIS 116 152 152 HIS HIS B . n B 2 117 PRO 117 153 153 PRO PRO B . n B 2 118 VAL 118 154 154 VAL VAL B . n B 2 119 CYS 119 155 155 CYS CYS B . n B 2 120 LEU 120 156 156 LEU LEU B . n B 2 121 PRO 121 157 157 PRO PRO B . n B 2 122 ASP 122 158 158 ASP ASP B . n B 2 123 ARG 123 159 159 ARG ARG B . n B 2 124 GLU 124 160 160 GLU GLU B . n B 2 125 THR 125 161 161 THR THR B . n B 2 126 ALA 126 162 162 ALA ALA B . n B 2 127 ALA 127 163 163 ALA ALA B . n B 2 128 SER 128 164 164 SER SER B . n B 2 129 LEU 129 165 165 LEU LEU B . n B 2 130 LEU 130 166 166 LEU LEU B . n B 2 131 GLN 131 167 167 GLN GLN B . n B 2 132 ALA 132 168 168 ALA ALA B . n B 2 133 GLY 133 169 169 GLY GLY B . n B 2 134 TYR 134 170 170 TYR TYR B . n B 2 135 LYS 135 171 171 LYS LYS B . n B 2 136 GLY 136 172 172 GLY GLY B . n B 2 137 ARG 137 173 173 ARG ARG B . n B 2 138 VAL 138 174 174 VAL VAL B . n B 2 139 THR 139 175 175 THR THR B . n B 2 140 GLY 140 176 176 GLY GLY B . n B 2 141 TRP 141 177 177 TRP TRP B . n B 2 142 GLY 142 178 178 GLY GLY B . n B 2 143 ASN 143 179 179 ASN ASN B . n B 2 144 LEU 144 180 180 LEU LEU B . n B 2 145 LYS 145 181 181 LYS LYS B . n B 2 146 GLU 146 182 182 GLU GLU B . n B 2 147 THR 147 183 183 THR THR B . n C 3 1 GLY 1 185 185 GLY GLY C . n C 3 2 GLN 2 186 186 GLN GLN C . n C 3 3 PRO 3 187 187 PRO PRO C . n C 3 4 SER 4 188 188 SER SER C . n C 3 5 VAL 5 189 189 VAL VAL C . n C 3 6 LEU 6 190 190 LEU LEU C . n C 3 7 GLN 7 191 191 GLN GLN C . n C 3 8 VAL 8 192 192 VAL VAL C . n C 3 9 VAL 9 193 193 VAL VAL C . n C 3 10 ASN 10 194 194 ASN ASN C . n C 3 11 LEU 11 195 195 LEU LEU C . n C 3 12 PRO 12 196 196 PRO PRO C . n C 3 13 ILE 13 197 197 ILE ILE C . n C 3 14 VAL 14 198 198 VAL VAL C . n C 3 15 GLU 15 199 199 GLU GLU C . n C 3 16 ARG 16 200 200 ARG ARG C . n C 3 17 PRO 17 201 201 PRO PRO C . n C 3 18 VAL 18 202 202 VAL VAL C . n C 3 19 CYS 19 203 203 CYS CYS C . n C 3 20 LYS 20 204 204 LYS LYS C . n C 3 21 ASP 21 205 205 ASP ASP C . n C 3 22 SER 22 206 206 SER SER C . n C 3 23 THR 23 207 207 THR THR C . n C 3 24 ARG 24 208 208 ARG ARG C . n C 3 25 ILE 25 209 209 ILE ILE C . n C 3 26 ARG 26 210 210 ARG ARG C . n C 3 27 ILE 27 211 211 ILE ILE C . n C 3 28 THR 28 212 212 THR THR C . n C 3 29 ASP 29 213 213 ASP ASP C . n C 3 30 ASN 30 214 214 ASN ASN C . n C 3 31 MET 31 215 215 MET MET C . n C 3 32 PHE 32 216 216 PHE PHE C . n C 3 33 CYS 33 217 217 CYS CYS C . n C 3 34 ALA 34 218 218 ALA ALA C . n C 3 35 GLY 35 219 219 GLY GLY C . n C 3 36 TYR 36 220 220 TYR TYR C . n C 3 37 LYS 37 221 221 LYS LYS C . n C 3 38 PRO 38 222 222 PRO PRO C . n C 3 39 ASP 39 223 223 ASP ASP C . n C 3 40 GLU 40 224 224 GLU GLU C . n C 3 41 GLY 41 225 225 GLY GLY C . n C 3 42 LYS 42 226 226 LYS LYS C . n C 3 43 ARG 43 227 227 ARG ARG C . n C 3 44 GLY 44 228 228 GLY GLY C . n C 3 45 ASP 45 229 229 ASP ASP C . n C 3 46 ALA 46 230 230 ALA ALA C . n C 3 47 CYS 47 231 231 CYS CYS C . n C 3 48 GLU 48 232 232 GLU GLU C . n C 3 49 GLY 49 233 233 GLY GLY C . n C 3 50 ASP 50 234 234 ASP ASP C . n C 3 51 SER 51 235 235 SER SER C . n C 3 52 GLY 52 236 236 GLY GLY C . n C 3 53 GLY 53 237 237 GLY GLY C . n C 3 54 PRO 54 238 238 PRO PRO C . n C 3 55 PHE 55 239 239 PHE PHE C . n C 3 56 VAL 56 240 240 VAL VAL C . n C 3 57 MET 57 241 241 MET MET C . n C 3 58 LYS 58 242 242 LYS LYS C . n C 3 59 SER 59 243 243 SER SER C . n C 3 60 PRO 60 244 244 PRO PRO C . n C 3 61 PHE 61 245 245 PHE PHE C . n C 3 62 ASN 62 246 246 ASN ASN C . n C 3 63 ASN 63 247 247 ASN ASN C . n C 3 64 ARG 64 248 248 ARG ARG C . n C 3 65 TRP 65 249 249 TRP TRP C . n C 3 66 TYR 66 250 250 TYR TYR C . n C 3 67 GLN 67 251 251 GLN GLN C . n C 3 68 MET 68 252 252 MET MET C . n C 3 69 GLY 69 253 253 GLY GLY C . n C 3 70 ILE 70 254 254 ILE ILE C . n C 3 71 VAL 71 255 255 VAL VAL C . n C 3 72 SER 72 256 256 SER SER C . n C 3 73 TRP 73 257 257 TRP TRP C . n C 3 74 GLY 74 258 258 GLY GLY C . n C 3 75 GLU 75 259 259 GLU GLU C . n C 3 76 GLY 76 260 260 GLY GLY C . n C 3 77 CYS 77 261 261 CYS CYS C . n C 3 78 ASP 78 262 262 ASP ASP C . n C 3 79 ARG 79 263 263 ARG ARG C . n C 3 80 ASP 80 264 264 ASP ASP C . n C 3 81 GLY 81 265 265 GLY GLY C . n C 3 82 LYS 82 266 266 LYS LYS C . n C 3 83 TYR 83 267 267 TYR TYR C . n C 3 84 GLY 84 268 268 GLY GLY C . n C 3 85 PHE 85 269 269 PHE PHE C . n C 3 86 TYR 86 270 270 TYR TYR C . n C 3 87 THR 87 271 271 THR THR C . n C 3 88 HIS 88 272 272 HIS HIS C . n C 3 89 VAL 89 273 273 VAL VAL C . n C 3 90 PHE 90 274 274 PHE PHE C . n C 3 91 ARG 91 275 275 ARG ARG C . n C 3 92 LEU 92 276 276 LEU LEU C . n C 3 93 LYS 93 277 277 LYS LYS C . n C 3 94 LYS 94 278 278 LYS LYS C . n C 3 95 TRP 95 279 279 TRP TRP C . n C 3 96 ILE 96 280 280 ILE ILE C . n C 3 97 GLN 97 281 281 GLN GLN C . n C 3 98 LYS 98 282 282 LYS LYS C . n C 3 99 VAL 99 283 283 VAL VAL C . n C 3 100 ILE 100 284 284 ILE ILE C . n C 3 101 ASP 101 285 285 ASP ASP C . n C 3 102 GLN 102 286 286 GLN GLN C . n D 4 1 ASP 1 355 355 ASP ASP D . n D 4 2 PHE 2 356 356 PHE PHE D . n D 4 3 GLU 3 357 357 GLU GLU D . n D 4 4 GLU 4 358 358 GLU GLU D . n D 4 5 ILE 5 359 359 ILE ILE D . n D 4 6 PRO 6 360 360 PRO PRO D . n D 4 7 GLY 7 361 361 GLY GLY D . n D 4 8 GLU 8 362 362 GLU GLU D . n D 4 9 TYS 9 363 363 TYS TYS D . n D 4 10 LEU 10 364 364 LEU LEU D . 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 E 5 NA 1 402 402 NA NA C . F 6 G44 1 101 101 G44 G44 C . G 7 HOH 1 34 21 HOH HOH A . G 7 HOH 2 35 24 HOH HOH A . G 7 HOH 3 36 43 HOH HOH A . G 7 HOH 4 37 47 HOH HOH A . H 7 HOH 1 184 1 HOH HOH B . H 7 HOH 2 185 2 HOH HOH B . H 7 HOH 3 186 4 HOH HOH B . H 7 HOH 4 187 6 HOH HOH B . H 7 HOH 5 188 7 HOH HOH B . H 7 HOH 6 189 8 HOH HOH B . H 7 HOH 7 190 9 HOH HOH B . H 7 HOH 8 191 11 HOH HOH B . H 7 HOH 9 192 12 HOH HOH B . H 7 HOH 10 193 15 HOH HOH B . H 7 HOH 11 194 19 HOH HOH B . H 7 HOH 12 195 26 HOH HOH B . H 7 HOH 13 196 27 HOH HOH B . H 7 HOH 14 197 28 HOH HOH B . H 7 HOH 15 198 29 HOH HOH B . H 7 HOH 16 199 30 HOH HOH B . H 7 HOH 17 200 31 HOH HOH B . H 7 HOH 18 201 32 HOH HOH B . H 7 HOH 19 202 34 HOH HOH B . H 7 HOH 20 203 40 HOH HOH B . H 7 HOH 21 204 41 HOH HOH B . H 7 HOH 22 205 42 HOH HOH B . H 7 HOH 23 206 44 HOH HOH B . I 7 HOH 1 403 3 HOH HOH C . I 7 HOH 2 404 5 HOH HOH C . I 7 HOH 3 405 10 HOH HOH C . I 7 HOH 4 406 13 HOH HOH C . I 7 HOH 5 407 14 HOH HOH C . I 7 HOH 6 408 16 HOH HOH C . I 7 HOH 7 409 17 HOH HOH C . I 7 HOH 8 410 18 HOH HOH C . I 7 HOH 9 411 20 HOH HOH C . I 7 HOH 10 412 22 HOH HOH C . I 7 HOH 11 413 23 HOH HOH C . I 7 HOH 12 414 25 HOH HOH C . I 7 HOH 13 415 33 HOH HOH C . I 7 HOH 14 416 35 HOH HOH C . I 7 HOH 15 417 36 HOH HOH C . I 7 HOH 16 418 37 HOH HOH C . I 7 HOH 17 419 38 HOH HOH C . I 7 HOH 18 420 39 HOH HOH C . I 7 HOH 19 421 45 HOH HOH C . I 7 HOH 20 422 46 HOH HOH C . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id D _pdbx_struct_mod_residue.label_comp_id TYS _pdbx_struct_mod_residue.label_seq_id 9 _pdbx_struct_mod_residue.auth_asym_id D _pdbx_struct_mod_residue.auth_comp_id TYS _pdbx_struct_mod_residue.auth_seq_id 363 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id TYR _pdbx_struct_mod_residue.details O-SULFO-L-TYROSINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I # _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 2008-04-22 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-18 # _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' 'Atomic model' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Derived calculations' 4 2 'Structure model' 'Non-polymer description' 5 2 'Structure model' 'Structure summary' 6 2 'Structure model' 'Version format compliance' 7 3 'Structure model' 'Refinement description' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 3 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category software # _pdbx_audit_revision_item.ordinal 1 _pdbx_audit_revision_item.revision_ordinal 3 _pdbx_audit_revision_item.data_content_type 'Structure model' _pdbx_audit_revision_item.item '_software.name' # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal REFMAC 5.2.0019 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 1 PDB_EXTRACT 2.000 'April. 3, 2006' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 2 MOSFLM . ? ? ? ? 'data reduction' ? ? ? 3 SCALA . ? ? ? ? 'data scaling' ? ? ? 4 REFMAC . ? ? ? ? phasing ? ? ? 5 # 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 PHE A 15 ? ? -119.62 -86.18 2 1 SER B 48 ? ? -146.26 56.85 3 1 SER B 58 ? ? -42.25 -89.83 4 1 GLN B 60 ? ? -27.80 109.38 5 1 LEU B 81 ? ? -91.60 -62.63 6 1 ASN B 89 ? ? -159.41 79.56 7 1 HIS B 102 ? ? -120.05 -52.61 8 1 ASN B 110 ? ? 71.78 -16.29 9 1 ARG B 125 ? ? -89.74 32.54 10 1 GLU B 130 ? ? -121.78 -72.45 11 1 ASN C 214 ? ? -91.48 31.19 12 1 GLU C 224 ? ? -21.49 -40.56 13 1 ARG C 227 ? ? -96.35 -158.85 14 1 SER C 235 ? ? -36.67 143.84 15 1 SER C 256 ? ? -122.35 -74.11 16 1 GLU D 357 ? ? -31.41 122.79 17 1 GLU D 358 ? ? -38.19 137.21 18 1 PRO D 360 ? ? -29.17 141.73 19 1 TYS D 363 ? ? -79.69 24.62 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 5 'SODIUM ION' NA 6 '4-({[4-(3-METHYLBENZOYL)PYRIDIN-2-YL]AMINO}METHYL)BENZENECARBOXIMIDAMIDE' G44 7 water HOH #