data_1KDJ # _entry.id 1KDJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1KDJ pdb_00001kdj 10.2210/pdb1kdj/pdb WWPDB D_1000174414 ? ? # 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 1999-05-11 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 5 'Structure model' 1 4 2024-04-03 # _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' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' Other 7 5 'Structure model' 'Refinement description' # 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' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_database_status 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_site 7 5 'Structure model' pdbx_initial_refinement_model # 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' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_database_status.process_site' 4 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 5 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 6 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 7 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 9 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 10 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 11 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 12 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 15 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 16 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 17 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 18 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1KDJ _pdbx_database_status.recvd_initial_deposition_date 1998-05-08 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Inoue, T.' 1 'Gotowda, M.' 2 'Hamada, K.' 3 'Kohzuma, T.' 4 'Yoshizaki, F.' 5 'Sugimura, Y.' 6 'Kai, Y.' 7 # _citation.id primary _citation.title ;The structure and unusual pH dependence of plastocyanin from the fern Dryopteris crassirhizoma. The protonation of an active site histidine is hindered by pi-pi interactions. ; _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 274 _citation.page_first 11817 _citation.page_last 11823 _citation.year 1999 _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 10206999 _citation.pdbx_database_id_DOI 10.1074/jbc.274.17.11817 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kohzuma, T.' 1 ? primary 'Inoue, T.' 2 ? primary 'Yoshizaki, F.' 3 ? primary 'Sasakawa, Y.' 4 ? primary 'Onodera, K.' 5 ? primary 'Nagatomo, S.' 6 ? primary 'Kitagawa, T.' 7 ? primary 'Uzawa, S.' 8 ? primary 'Isobe, Y.' 9 ? primary 'Sugimura, Y.' 10 ? primary 'Gotowda, M.' 11 ? primary 'Kai, Y.' 12 ? # 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 PLASTOCYANIN 10785.973 1 ? ? ? OXIDIZED 2 non-polymer syn 'COPPER (II) ION' 63.546 1 ? ? ? ? 3 water nat water 18.015 49 ? ? ? ? # _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 ;AKVEVGDEVGNFKFYPDSITVSAGEAVEFTLVGETGHNIVFDIPAGAPGTVASELKAASMDENDLLSEDEPSFKAKVSTP GTYTFYCTPHKSANMKGTLTVK ; _entity_poly.pdbx_seq_one_letter_code_can ;AKVEVGDEVGNFKFYPDSITVSAGEAVEFTLVGETGHNIVFDIPAGAPGTVASELKAASMDENDLLSEDEPSFKAKVSTP GTYTFYCTPHKSANMKGTLTVK ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'COPPER (II) ION' CU 3 water HOH # 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 LYS n 1 3 VAL n 1 4 GLU n 1 5 VAL n 1 6 GLY n 1 7 ASP n 1 8 GLU n 1 9 VAL n 1 10 GLY n 1 11 ASN n 1 12 PHE n 1 13 LYS n 1 14 PHE n 1 15 TYR n 1 16 PRO n 1 17 ASP n 1 18 SER n 1 19 ILE n 1 20 THR n 1 21 VAL n 1 22 SER n 1 23 ALA n 1 24 GLY n 1 25 GLU n 1 26 ALA n 1 27 VAL n 1 28 GLU n 1 29 PHE n 1 30 THR n 1 31 LEU n 1 32 VAL n 1 33 GLY n 1 34 GLU n 1 35 THR n 1 36 GLY n 1 37 HIS n 1 38 ASN n 1 39 ILE n 1 40 VAL n 1 41 PHE n 1 42 ASP n 1 43 ILE n 1 44 PRO n 1 45 ALA n 1 46 GLY n 1 47 ALA n 1 48 PRO n 1 49 GLY n 1 50 THR n 1 51 VAL n 1 52 ALA n 1 53 SER n 1 54 GLU n 1 55 LEU n 1 56 LYS n 1 57 ALA n 1 58 ALA n 1 59 SER n 1 60 MET n 1 61 ASP n 1 62 GLU n 1 63 ASN n 1 64 ASP n 1 65 LEU n 1 66 LEU n 1 67 SER n 1 68 GLU n 1 69 ASP n 1 70 GLU n 1 71 PRO n 1 72 SER n 1 73 PHE n 1 74 LYS n 1 75 ALA n 1 76 LYS n 1 77 VAL n 1 78 SER n 1 79 THR n 1 80 PRO n 1 81 GLY n 1 82 THR n 1 83 TYR n 1 84 THR n 1 85 PHE n 1 86 TYR n 1 87 CYS n 1 88 THR n 1 89 PRO n 1 90 HIS n 1 91 LYS n 1 92 SER n 1 93 ALA n 1 94 ASN n 1 95 MET n 1 96 LYS n 1 97 GLY n 1 98 THR n 1 99 LEU n 1 100 THR n 1 101 VAL n 1 102 LYS n # _entity_src_nat.entity_id 1 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _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 'Adiantum capillus-veneris' _entity_src_nat.pdbx_ncbi_taxonomy_id 13818 _entity_src_nat.genus Adiantum _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 ? # 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 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 CU non-polymer . 'COPPER (II) ION' ? 'Cu 2' 63.546 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 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 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ALA 1 1 1 ALA ALA A . n A 1 2 LYS 2 2 2 LYS LYS A . n A 1 3 VAL 3 3 3 VAL VAL A . n A 1 4 GLU 4 4 4 GLU GLU A . n A 1 5 VAL 5 5 5 VAL VAL A . n A 1 6 GLY 6 6 6 GLY GLY A . n A 1 7 ASP 7 7 7 ASP ASP A . n A 1 8 GLU 8 8 8 GLU GLU A . n A 1 9 VAL 9 9 9 VAL VAL A . n A 1 10 GLY 10 10 10 GLY GLY A . n A 1 11 ASN 11 11 11 ASN ASN A . n A 1 12 PHE 12 12 12 PHE PHE A . n A 1 13 LYS 13 13 13 LYS LYS A . n A 1 14 PHE 14 14 14 PHE PHE A . n A 1 15 TYR 15 15 15 TYR TYR A . n A 1 16 PRO 16 16 16 PRO PRO A . n A 1 17 ASP 17 17 17 ASP ASP A . n A 1 18 SER 18 18 18 SER SER A . n A 1 19 ILE 19 19 19 ILE ILE A . n A 1 20 THR 20 20 20 THR THR A . n A 1 21 VAL 21 21 21 VAL VAL A . n A 1 22 SER 22 22 22 SER SER A . n A 1 23 ALA 23 23 23 ALA ALA A . n A 1 24 GLY 24 24 24 GLY GLY A . n A 1 25 GLU 25 25 25 GLU GLU A . n A 1 26 ALA 26 26 26 ALA ALA A . n A 1 27 VAL 27 27 27 VAL VAL A . n A 1 28 GLU 28 28 28 GLU GLU A . n A 1 29 PHE 29 29 29 PHE PHE A . n A 1 30 THR 30 30 30 THR THR A . n A 1 31 LEU 31 31 31 LEU LEU A . n A 1 32 VAL 32 32 32 VAL VAL A . n A 1 33 GLY 33 33 33 GLY GLY A . n A 1 34 GLU 34 34 34 GLU GLU A . n A 1 35 THR 35 35 35 THR THR A . n A 1 36 GLY 36 36 36 GLY GLY A . n A 1 37 HIS 37 37 37 HIS HIS A . n A 1 38 ASN 38 38 38 ASN ASN A . n A 1 39 ILE 39 39 39 ILE ILE A . n A 1 40 VAL 40 40 40 VAL VAL A . n A 1 41 PHE 41 41 41 PHE PHE A . n A 1 42 ASP 42 42 42 ASP ASP A . n A 1 43 ILE 43 43 43 ILE ILE A . n A 1 44 PRO 44 44 44 PRO PRO A . n A 1 45 ALA 45 45 45 ALA ALA A . n A 1 46 GLY 46 46 46 GLY GLY A . n A 1 47 ALA 47 47 47 ALA ALA A . n A 1 48 PRO 48 48 48 PRO PRO A . n A 1 49 GLY 49 49 49 GLY GLY A . n A 1 50 THR 50 50 50 THR THR A . n A 1 51 VAL 51 51 51 VAL VAL A . n A 1 52 ALA 52 52 52 ALA ALA A . n A 1 53 SER 53 53 53 SER SER A . n A 1 54 GLU 54 54 54 GLU GLU A . n A 1 55 LEU 55 55 55 LEU LEU A . n A 1 56 LYS 56 56 56 LYS LYS A . n A 1 57 ALA 57 57 57 ALA ALA A . n A 1 58 ALA 58 58 58 ALA ALA A . n A 1 59 SER 59 59 59 SER SER A . n A 1 60 MET 60 60 60 MET MET A . n A 1 61 ASP 61 61 61 ASP ASP A . n A 1 62 GLU 62 62 62 GLU GLU A . n A 1 63 ASN 63 63 63 ASN ASN A . n A 1 64 ASP 64 64 64 ASP ASP A . n A 1 65 LEU 65 65 65 LEU LEU A . n A 1 66 LEU 66 66 66 LEU LEU A . n A 1 67 SER 67 67 67 SER SER A . n A 1 68 GLU 68 68 68 GLU GLU A . n A 1 69 ASP 69 69 69 ASP ASP A . n A 1 70 GLU 70 70 70 GLU GLU A . n A 1 71 PRO 71 71 71 PRO PRO A . n A 1 72 SER 72 72 72 SER SER A . n A 1 73 PHE 73 73 73 PHE PHE A . n A 1 74 LYS 74 74 74 LYS LYS A . n A 1 75 ALA 75 75 75 ALA ALA A . n A 1 76 LYS 76 76 76 LYS LYS A . n A 1 77 VAL 77 77 77 VAL VAL A . n A 1 78 SER 78 78 78 SER SER A . n A 1 79 THR 79 79 79 THR THR A . n A 1 80 PRO 80 80 80 PRO PRO A . n A 1 81 GLY 81 81 81 GLY GLY A . n A 1 82 THR 82 82 82 THR THR A . n A 1 83 TYR 83 83 83 TYR TYR A . n A 1 84 THR 84 84 84 THR THR A . n A 1 85 PHE 85 85 85 PHE PHE A . n A 1 86 TYR 86 86 86 TYR TYR A . n A 1 87 CYS 87 87 87 CYS CYS A . n A 1 88 THR 88 88 88 THR THR A . n A 1 89 PRO 89 89 89 PRO PRO A . n A 1 90 HIS 90 90 90 HIS HIS A . n A 1 91 LYS 91 91 91 LYS LYS A . n A 1 92 SER 92 92 92 SER SER A . n A 1 93 ALA 93 93 93 ALA ALA A . n A 1 94 ASN 94 94 94 ASN ASN A . n A 1 95 MET 95 95 95 MET MET A . n A 1 96 LYS 96 96 96 LYS LYS A . n A 1 97 GLY 97 97 97 GLY GLY A . n A 1 98 THR 98 98 98 THR THR A . n A 1 99 LEU 99 99 99 LEU LEU A . n A 1 100 THR 100 100 100 THR THR A . n A 1 101 VAL 101 101 101 VAL VAL A . n A 1 102 LYS 102 102 102 LYS LYS A . 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 B 2 CU 1 103 103 CU CU A . C 3 HOH 1 201 201 HOH HOH A . C 3 HOH 2 202 202 HOH HOH A . C 3 HOH 3 203 203 HOH HOH A . C 3 HOH 4 204 204 HOH HOH A . C 3 HOH 5 205 205 HOH HOH A . C 3 HOH 6 206 206 HOH HOH A . C 3 HOH 7 207 207 HOH HOH A . C 3 HOH 8 208 208 HOH HOH A . C 3 HOH 9 209 209 HOH HOH A . C 3 HOH 10 210 210 HOH HOH A . C 3 HOH 11 211 211 HOH HOH A . C 3 HOH 12 212 212 HOH HOH A . C 3 HOH 13 213 213 HOH HOH A . C 3 HOH 14 214 214 HOH HOH A . C 3 HOH 15 215 215 HOH HOH A . C 3 HOH 16 216 216 HOH HOH A . C 3 HOH 17 217 217 HOH HOH A . C 3 HOH 18 218 218 HOH HOH A . C 3 HOH 19 219 219 HOH HOH A . C 3 HOH 20 221 221 HOH HOH A . C 3 HOH 21 222 222 HOH HOH A . C 3 HOH 22 223 223 HOH HOH A . C 3 HOH 23 224 224 HOH HOH A . C 3 HOH 24 225 225 HOH HOH A . C 3 HOH 25 226 226 HOH HOH A . C 3 HOH 26 227 227 HOH HOH A . C 3 HOH 27 228 228 HOH HOH A . C 3 HOH 28 229 229 HOH HOH A . C 3 HOH 29 230 230 HOH HOH A . C 3 HOH 30 231 231 HOH HOH A . C 3 HOH 31 232 232 HOH HOH A . C 3 HOH 32 233 233 HOH HOH A . C 3 HOH 33 234 234 HOH HOH A . C 3 HOH 34 235 235 HOH HOH A . C 3 HOH 35 236 236 HOH HOH A . C 3 HOH 36 238 238 HOH HOH A . C 3 HOH 37 239 239 HOH HOH A . C 3 HOH 38 240 240 HOH HOH A . C 3 HOH 39 241 241 HOH HOH A . C 3 HOH 40 242 242 HOH HOH A . C 3 HOH 41 243 243 HOH HOH A . C 3 HOH 42 244 244 HOH HOH A . C 3 HOH 43 245 245 HOH HOH A . C 3 HOH 44 246 246 HOH HOH A . C 3 HOH 45 247 247 HOH HOH A . C 3 HOH 46 248 248 HOH HOH A . C 3 HOH 47 249 249 HOH HOH A . C 3 HOH 48 250 250 HOH HOH A . C 3 HOH 49 251 251 HOH HOH A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.0 ? 1 X-PLOR refinement 3.0 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 X-PLOR phasing 3.0 ? 5 # _cell.entry_id 1KDJ _cell.length_a 73.118 _cell.length_b 73.118 _cell.length_c 31.095 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KDJ _symmetry.space_group_name_H-M 'P 61' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 # _exptl.entry_id 1KDJ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.4 _exptl_crystal.density_percent_sol 48 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 4.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details 'pH 4.5' # _diffrn.id 1 _diffrn.ambient_temp 298 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type WEISSENBERG _diffrn_detector.pdbx_collection_date 1996-02-20 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'SI(111)' _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-6B' _diffrn_source.pdbx_synchrotron_site 'Photon Factory' _diffrn_source.pdbx_synchrotron_beamline BL-6B _diffrn_source.pdbx_wavelength 1.0 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1KDJ _reflns.observed_criterion_sigma_I 2 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.0 _reflns.d_resolution_high 1.7 _reflns.number_obs 10063 _reflns.number_all ? _reflns.percent_possible_obs 95.0 _reflns.pdbx_Rmerge_I_obs 0.0500000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 9.1 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 9.2 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.70 _reflns_shell.d_res_low 1.76 _reflns_shell.percent_possible_all 83.3 _reflns_shell.Rmerge_I_obs 0.1480000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.45 _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1KDJ _refine.ls_number_reflns_obs 9809 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF 0 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 6.0 _refine.ls_d_res_high 1.7 _refine.ls_percent_reflns_obs 95.0 _refine.ls_R_factor_obs 0.2340000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2340000 _refine.ls_R_factor_R_free 0.2550000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10 _refine.ls_number_reflns_R_free 1016 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model 'POPLAR PLASTOCYANIN' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1KDJ _refine_analyze.Luzzati_coordinate_error_obs 0.20 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 758 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 49 _refine_hist.number_atoms_total 808 _refine_hist.d_res_high 1.7 _refine_hist.d_res_low 6.0 # 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 x_bond_d 0.013 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 2.78 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d 27.40 ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d 1.75 ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 8 _refine_ls_shell.d_res_high 1.70 _refine_ls_shell.d_res_low 1.78 _refine_ls_shell.number_reflns_R_work 891 _refine_ls_shell.R_factor_R_work 0.3400000 _refine_ls_shell.percent_reflns_obs 83.0 _refine_ls_shell.R_factor_R_free 0.3650000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free 10 _refine_ls_shell.number_reflns_R_free 117 _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _database_PDB_matrix.entry_id 1KDJ _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 # _struct.entry_id 1KDJ _struct.title 'OXIDIZED FORM OF PLASTOCYANIN FROM DRYOPTERIS CRASSIRHIZOMA' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1KDJ _struct_keywords.pdbx_keywords 'ELECTRON TRANSFER' _struct_keywords.text 'ELECTRON TRANSFER, PHOTOSYSTEM, PAI-PAI STACKING' # 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code PLAS_DRYCA _struct_ref.pdbx_db_accession Q7SIB8 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1KDJ _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 102 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q7SIB8 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 102 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 102 # _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,C # _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 # _struct_biol.id 1 # 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 GLY A 49 ? ALA A 57 ? GLY A 49 ALA A 57 1 ? 9 HELX_P HELX_P2 2 LYS A 91 ? ALA A 93 ? LYS A 91 ALA A 93 5 ? 3 # _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 metalc1 metalc ? ? A HIS 37 ND1 ? ? ? 1_555 B CU . CU ? ? A HIS 37 A CU 103 1_555 ? ? ? ? ? ? ? 1.928 ? ? metalc2 metalc ? ? A CYS 87 SG ? ? ? 1_555 B CU . CU ? ? A CYS 87 A CU 103 1_555 ? ? ? ? ? ? ? 2.255 ? ? metalc3 metalc ? ? A HIS 90 ND1 ? ? ? 1_555 B CU . CU ? ? A HIS 90 A CU 103 1_555 ? ? ? ? ? ? ? 2.065 ? ? # _struct_conn_type.id metalc _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 ND1 ? A HIS 37 ? A HIS 37 ? 1_555 CU ? B CU . ? A CU 103 ? 1_555 SG ? A CYS 87 ? A CYS 87 ? 1_555 126.1 ? 2 ND1 ? A HIS 37 ? A HIS 37 ? 1_555 CU ? B CU . ? A CU 103 ? 1_555 ND1 ? A HIS 90 ? A HIS 90 ? 1_555 107.3 ? 3 SG ? A CYS 87 ? A CYS 87 ? 1_555 CU ? B CU . ? A CU 103 ? 1_555 ND1 ? A HIS 90 ? A HIS 90 ? 1_555 118.3 ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id TYR _struct_mon_prot_cis.label_seq_id 15 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id TYR _struct_mon_prot_cis.auth_seq_id 15 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 16 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 16 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle -8.43 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? B ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? parallel A 2 3 ? anti-parallel B 1 2 ? parallel B 2 3 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 LYS A 2 ? VAL A 5 ? LYS A 2 VAL A 5 A 2 VAL A 27 ? LEU A 31 ? VAL A 27 LEU A 31 A 3 SER A 72 ? ALA A 75 ? SER A 72 ALA A 75 B 1 SER A 18 ? VAL A 21 ? SER A 18 VAL A 21 B 2 LYS A 96 ? VAL A 101 ? LYS A 96 VAL A 101 B 3 GLY A 81 ? TYR A 86 ? GLY A 81 TYR A 86 # 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 VAL A 3 ? O VAL A 3 N GLU A 28 ? N GLU A 28 A 2 3 O VAL A 27 ? O VAL A 27 N ALA A 75 ? N ALA A 75 B 1 2 O ILE A 19 ? O ILE A 19 N THR A 98 ? N THR A 98 B 2 3 O GLY A 97 ? O GLY A 97 N PHE A 85 ? N PHE A 85 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id CU _struct_site.pdbx_auth_seq_id 103 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 4 _struct_site.details 'BINDING SITE FOR RESIDUE CU A 103' # 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 HIS A 37 ? HIS A 37 . ? 1_555 ? 2 AC1 4 CYS A 87 ? CYS A 87 . ? 1_555 ? 3 AC1 4 HIS A 90 ? HIS A 90 . ? 1_555 ? 4 AC1 4 MET A 95 ? MET A 95 . ? 1_555 ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CE1 _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 HIS _pdbx_validate_rmsd_angle.auth_seq_id_1 90 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 NE2 _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 HIS _pdbx_validate_rmsd_angle.auth_seq_id_2 90 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 CD2 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 HIS _pdbx_validate_rmsd_angle.auth_seq_id_3 90 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 113.52 _pdbx_validate_rmsd_angle.angle_target_value 109.00 _pdbx_validate_rmsd_angle.angle_deviation 4.52 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.70 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id GLU _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 62 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -64.32 _pdbx_validate_torsion.psi 4.28 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ASN N N N N 14 ASN CA C N S 15 ASN C C N N 16 ASN O O N N 17 ASN CB C N N 18 ASN CG C N N 19 ASN OD1 O N N 20 ASN ND2 N N N 21 ASN OXT O N N 22 ASN H H N N 23 ASN H2 H N N 24 ASN HA H N N 25 ASN HB2 H N N 26 ASN HB3 H N N 27 ASN HD21 H N N 28 ASN HD22 H N N 29 ASN HXT H N N 30 ASP N N N N 31 ASP CA C N S 32 ASP C C N N 33 ASP O O N N 34 ASP CB C N N 35 ASP CG C N N 36 ASP OD1 O N N 37 ASP OD2 O N N 38 ASP OXT O N N 39 ASP H H N N 40 ASP H2 H N N 41 ASP HA H N N 42 ASP HB2 H N N 43 ASP HB3 H N N 44 ASP HD2 H N N 45 ASP HXT H N N 46 CU CU CU N N 47 CYS N N N N 48 CYS CA C N R 49 CYS C C N N 50 CYS O O N N 51 CYS CB C N N 52 CYS SG S N N 53 CYS OXT O N N 54 CYS H H N N 55 CYS H2 H N N 56 CYS HA H N N 57 CYS HB2 H N N 58 CYS HB3 H N N 59 CYS HG H N N 60 CYS HXT H N N 61 GLU N N N N 62 GLU CA C N S 63 GLU C C N N 64 GLU O O N N 65 GLU CB C N N 66 GLU CG C N N 67 GLU CD C N N 68 GLU OE1 O N N 69 GLU OE2 O N N 70 GLU OXT O N N 71 GLU H H N N 72 GLU H2 H N N 73 GLU HA H N N 74 GLU HB2 H N N 75 GLU HB3 H N N 76 GLU HG2 H N N 77 GLU HG3 H N N 78 GLU HE2 H N N 79 GLU HXT H N N 80 GLY N N N N 81 GLY CA C N N 82 GLY C C N N 83 GLY O O N N 84 GLY OXT O N N 85 GLY H H N N 86 GLY H2 H N N 87 GLY HA2 H N N 88 GLY HA3 H N N 89 GLY HXT H N N 90 HIS N N N N 91 HIS CA C N S 92 HIS C C N N 93 HIS O O N N 94 HIS CB C N N 95 HIS CG C Y N 96 HIS ND1 N Y N 97 HIS CD2 C Y N 98 HIS CE1 C Y N 99 HIS NE2 N Y N 100 HIS OXT O N N 101 HIS H H N N 102 HIS H2 H N N 103 HIS HA H N N 104 HIS HB2 H N N 105 HIS HB3 H N N 106 HIS HD1 H N N 107 HIS HD2 H N N 108 HIS HE1 H N N 109 HIS HE2 H N N 110 HIS HXT H N N 111 HOH O O N N 112 HOH H1 H N N 113 HOH H2 H N N 114 ILE N N N N 115 ILE CA C N S 116 ILE C C N N 117 ILE O O N N 118 ILE CB C N S 119 ILE CG1 C N N 120 ILE CG2 C N N 121 ILE CD1 C N N 122 ILE OXT O N N 123 ILE H H N N 124 ILE H2 H N N 125 ILE HA H N N 126 ILE HB H N N 127 ILE HG12 H N N 128 ILE HG13 H N N 129 ILE HG21 H N N 130 ILE HG22 H N N 131 ILE HG23 H N N 132 ILE HD11 H N N 133 ILE HD12 H N N 134 ILE HD13 H N N 135 ILE HXT H N N 136 LEU N N N N 137 LEU CA C N S 138 LEU C C N N 139 LEU O O N N 140 LEU CB C N N 141 LEU CG C N N 142 LEU CD1 C N N 143 LEU CD2 C N N 144 LEU OXT O N N 145 LEU H H N N 146 LEU H2 H N N 147 LEU HA H N N 148 LEU HB2 H N N 149 LEU HB3 H N N 150 LEU HG H N N 151 LEU HD11 H N N 152 LEU HD12 H N N 153 LEU HD13 H N N 154 LEU HD21 H N N 155 LEU HD22 H N N 156 LEU HD23 H N N 157 LEU HXT H N N 158 LYS N N N N 159 LYS CA C N S 160 LYS C C N N 161 LYS O O N N 162 LYS CB C N N 163 LYS CG C N N 164 LYS CD C N N 165 LYS CE C N N 166 LYS NZ N N N 167 LYS OXT O N N 168 LYS H H N N 169 LYS H2 H N N 170 LYS HA H N N 171 LYS HB2 H N N 172 LYS HB3 H N N 173 LYS HG2 H N N 174 LYS HG3 H N N 175 LYS HD2 H N N 176 LYS HD3 H N N 177 LYS HE2 H N N 178 LYS HE3 H N N 179 LYS HZ1 H N N 180 LYS HZ2 H N N 181 LYS HZ3 H N N 182 LYS HXT H N N 183 MET N N N N 184 MET CA C N S 185 MET C C N N 186 MET O O N N 187 MET CB C N N 188 MET CG C N N 189 MET SD S N N 190 MET CE C N N 191 MET OXT O N N 192 MET H H N N 193 MET H2 H N N 194 MET HA H N N 195 MET HB2 H N N 196 MET HB3 H N N 197 MET HG2 H N N 198 MET HG3 H N N 199 MET HE1 H N N 200 MET HE2 H N N 201 MET HE3 H N N 202 MET HXT H N N 203 PHE N N N N 204 PHE CA C N S 205 PHE C C N N 206 PHE O O N N 207 PHE CB C N N 208 PHE CG C Y N 209 PHE CD1 C Y N 210 PHE CD2 C Y N 211 PHE CE1 C Y N 212 PHE CE2 C Y N 213 PHE CZ C Y N 214 PHE OXT O N N 215 PHE H H N N 216 PHE H2 H N N 217 PHE HA H N N 218 PHE HB2 H N N 219 PHE HB3 H N N 220 PHE HD1 H N N 221 PHE HD2 H N N 222 PHE HE1 H N N 223 PHE HE2 H N N 224 PHE HZ H N N 225 PHE HXT H N N 226 PRO N N N N 227 PRO CA C N S 228 PRO C C N N 229 PRO O O N N 230 PRO CB C N N 231 PRO CG C N N 232 PRO CD C N N 233 PRO OXT O N N 234 PRO H H N N 235 PRO HA H N N 236 PRO HB2 H N N 237 PRO HB3 H N N 238 PRO HG2 H N N 239 PRO HG3 H N N 240 PRO HD2 H N N 241 PRO HD3 H N N 242 PRO HXT H N N 243 SER N N N N 244 SER CA C N S 245 SER C C N N 246 SER O O N N 247 SER CB C N N 248 SER OG O N N 249 SER OXT O N N 250 SER H H N N 251 SER H2 H N N 252 SER HA H N N 253 SER HB2 H N N 254 SER HB3 H N N 255 SER HG H N N 256 SER HXT H N N 257 THR N N N N 258 THR CA C N S 259 THR C C N N 260 THR O O N N 261 THR CB C N R 262 THR OG1 O N N 263 THR CG2 C N N 264 THR OXT O N N 265 THR H H N N 266 THR H2 H N N 267 THR HA H N N 268 THR HB H N N 269 THR HG1 H N N 270 THR HG21 H N N 271 THR HG22 H N N 272 THR HG23 H N N 273 THR HXT H N N 274 TYR N N N N 275 TYR CA C N S 276 TYR C C N N 277 TYR O O N N 278 TYR CB C N N 279 TYR CG C Y N 280 TYR CD1 C Y N 281 TYR CD2 C Y N 282 TYR CE1 C Y N 283 TYR CE2 C Y N 284 TYR CZ C Y N 285 TYR OH O N N 286 TYR OXT O N N 287 TYR H H N N 288 TYR H2 H N N 289 TYR HA H N N 290 TYR HB2 H N N 291 TYR HB3 H N N 292 TYR HD1 H N N 293 TYR HD2 H N N 294 TYR HE1 H N N 295 TYR HE2 H N N 296 TYR HH H N N 297 TYR HXT H N N 298 VAL N N N N 299 VAL CA C N S 300 VAL C C N N 301 VAL O O N N 302 VAL CB C N N 303 VAL CG1 C N N 304 VAL CG2 C N N 305 VAL OXT O N N 306 VAL H H N N 307 VAL H2 H N N 308 VAL HA H N N 309 VAL HB H N N 310 VAL HG11 H N N 311 VAL HG12 H N N 312 VAL HG13 H N N 313 VAL HG21 H N N 314 VAL HG22 H N N 315 VAL HG23 H N N 316 VAL HXT H N N 317 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ASN N CA sing N N 13 ASN N H sing N N 14 ASN N H2 sing N N 15 ASN CA C sing N N 16 ASN CA CB sing N N 17 ASN CA HA sing N N 18 ASN C O doub N N 19 ASN C OXT sing N N 20 ASN CB CG sing N N 21 ASN CB HB2 sing N N 22 ASN CB HB3 sing N N 23 ASN CG OD1 doub N N 24 ASN CG ND2 sing N N 25 ASN ND2 HD21 sing N N 26 ASN ND2 HD22 sing N N 27 ASN OXT HXT sing N N 28 ASP N CA sing N N 29 ASP N H sing N N 30 ASP N H2 sing N N 31 ASP CA C sing N N 32 ASP CA CB sing N N 33 ASP CA HA sing N N 34 ASP C O doub N N 35 ASP C OXT sing N N 36 ASP CB CG sing N N 37 ASP CB HB2 sing N N 38 ASP CB HB3 sing N N 39 ASP CG OD1 doub N N 40 ASP CG OD2 sing N N 41 ASP OD2 HD2 sing N N 42 ASP OXT HXT sing N N 43 CYS N CA sing N N 44 CYS N H sing N N 45 CYS N H2 sing N N 46 CYS CA C sing N N 47 CYS CA CB sing N N 48 CYS CA HA sing N N 49 CYS C O doub N N 50 CYS C OXT sing N N 51 CYS CB SG sing N N 52 CYS CB HB2 sing N N 53 CYS CB HB3 sing N N 54 CYS SG HG sing N N 55 CYS OXT HXT sing N N 56 GLU N CA sing N N 57 GLU N H sing N N 58 GLU N H2 sing N N 59 GLU CA C sing N N 60 GLU CA CB sing N N 61 GLU CA HA sing N N 62 GLU C O doub N N 63 GLU C OXT sing N N 64 GLU CB CG sing N N 65 GLU CB HB2 sing N N 66 GLU CB HB3 sing N N 67 GLU CG CD sing N N 68 GLU CG HG2 sing N N 69 GLU CG HG3 sing N N 70 GLU CD OE1 doub N N 71 GLU CD OE2 sing N N 72 GLU OE2 HE2 sing N N 73 GLU OXT HXT sing N N 74 GLY N CA sing N N 75 GLY N H sing N N 76 GLY N H2 sing N N 77 GLY CA C sing N N 78 GLY CA HA2 sing N N 79 GLY CA HA3 sing N N 80 GLY C O doub N N 81 GLY C OXT sing N N 82 GLY OXT HXT sing N N 83 HIS N CA sing N N 84 HIS N H sing N N 85 HIS N H2 sing N N 86 HIS CA C sing N N 87 HIS CA CB sing N N 88 HIS CA HA sing N N 89 HIS C O doub N N 90 HIS C OXT sing N N 91 HIS CB CG sing N N 92 HIS CB HB2 sing N N 93 HIS CB HB3 sing N N 94 HIS CG ND1 sing Y N 95 HIS CG CD2 doub Y N 96 HIS ND1 CE1 doub Y N 97 HIS ND1 HD1 sing N N 98 HIS CD2 NE2 sing Y N 99 HIS CD2 HD2 sing N N 100 HIS CE1 NE2 sing Y N 101 HIS CE1 HE1 sing N N 102 HIS NE2 HE2 sing N N 103 HIS OXT HXT sing N N 104 HOH O H1 sing N N 105 HOH O H2 sing N N 106 ILE N CA sing N N 107 ILE N H sing N N 108 ILE N H2 sing N N 109 ILE CA C sing N N 110 ILE CA CB sing N N 111 ILE CA HA sing N N 112 ILE C O doub N N 113 ILE C OXT sing N N 114 ILE CB CG1 sing N N 115 ILE CB CG2 sing N N 116 ILE CB HB sing N N 117 ILE CG1 CD1 sing N N 118 ILE CG1 HG12 sing N N 119 ILE CG1 HG13 sing N N 120 ILE CG2 HG21 sing N N 121 ILE CG2 HG22 sing N N 122 ILE CG2 HG23 sing N N 123 ILE CD1 HD11 sing N N 124 ILE CD1 HD12 sing N N 125 ILE CD1 HD13 sing N N 126 ILE OXT HXT sing N N 127 LEU N CA sing N N 128 LEU N H sing N N 129 LEU N H2 sing N N 130 LEU CA C sing N N 131 LEU CA CB sing N N 132 LEU CA HA sing N N 133 LEU C O doub N N 134 LEU C OXT sing N N 135 LEU CB CG sing N N 136 LEU CB HB2 sing N N 137 LEU CB HB3 sing N N 138 LEU CG CD1 sing N N 139 LEU CG CD2 sing N N 140 LEU CG HG sing N N 141 LEU CD1 HD11 sing N N 142 LEU CD1 HD12 sing N N 143 LEU CD1 HD13 sing N N 144 LEU CD2 HD21 sing N N 145 LEU CD2 HD22 sing N N 146 LEU CD2 HD23 sing N N 147 LEU OXT HXT sing N N 148 LYS N CA sing N N 149 LYS N H sing N N 150 LYS N H2 sing N N 151 LYS CA C sing N N 152 LYS CA CB sing N N 153 LYS CA HA sing N N 154 LYS C O doub N N 155 LYS C OXT sing N N 156 LYS CB CG sing N N 157 LYS CB HB2 sing N N 158 LYS CB HB3 sing N N 159 LYS CG CD sing N N 160 LYS CG HG2 sing N N 161 LYS CG HG3 sing N N 162 LYS CD CE sing N N 163 LYS CD HD2 sing N N 164 LYS CD HD3 sing N N 165 LYS CE NZ sing N N 166 LYS CE HE2 sing N N 167 LYS CE HE3 sing N N 168 LYS NZ HZ1 sing N N 169 LYS NZ HZ2 sing N N 170 LYS NZ HZ3 sing N N 171 LYS OXT HXT sing N N 172 MET N CA sing N N 173 MET N H sing N N 174 MET N H2 sing N N 175 MET CA C sing N N 176 MET CA CB sing N N 177 MET CA HA sing N N 178 MET C O doub N N 179 MET C OXT sing N N 180 MET CB CG sing N N 181 MET CB HB2 sing N N 182 MET CB HB3 sing N N 183 MET CG SD sing N N 184 MET CG HG2 sing N N 185 MET CG HG3 sing N N 186 MET SD CE sing N N 187 MET CE HE1 sing N N 188 MET CE HE2 sing N N 189 MET CE HE3 sing N N 190 MET OXT HXT sing N N 191 PHE N CA sing N N 192 PHE N H sing N N 193 PHE N H2 sing N N 194 PHE CA C sing N N 195 PHE CA CB sing N N 196 PHE CA HA sing N N 197 PHE C O doub N N 198 PHE C OXT sing N N 199 PHE CB CG sing N N 200 PHE CB HB2 sing N N 201 PHE CB HB3 sing N N 202 PHE CG CD1 doub Y N 203 PHE CG CD2 sing Y N 204 PHE CD1 CE1 sing Y N 205 PHE CD1 HD1 sing N N 206 PHE CD2 CE2 doub Y N 207 PHE CD2 HD2 sing N N 208 PHE CE1 CZ doub Y N 209 PHE CE1 HE1 sing N N 210 PHE CE2 CZ sing Y N 211 PHE CE2 HE2 sing N N 212 PHE CZ HZ sing N N 213 PHE OXT HXT sing N N 214 PRO N CA sing N N 215 PRO N CD sing N N 216 PRO N H sing N N 217 PRO CA C sing N N 218 PRO CA CB sing N N 219 PRO CA HA sing N N 220 PRO C O doub N N 221 PRO C OXT sing N N 222 PRO CB CG sing N N 223 PRO CB HB2 sing N N 224 PRO CB HB3 sing N N 225 PRO CG CD sing N N 226 PRO CG HG2 sing N N 227 PRO CG HG3 sing N N 228 PRO CD HD2 sing N N 229 PRO CD HD3 sing N N 230 PRO OXT HXT sing N N 231 SER N CA sing N N 232 SER N H sing N N 233 SER N H2 sing N N 234 SER CA C sing N N 235 SER CA CB sing N N 236 SER CA HA sing N N 237 SER C O doub N N 238 SER C OXT sing N N 239 SER CB OG sing N N 240 SER CB HB2 sing N N 241 SER CB HB3 sing N N 242 SER OG HG sing N N 243 SER OXT HXT sing N N 244 THR N CA sing N N 245 THR N H sing N N 246 THR N H2 sing N N 247 THR CA C sing N N 248 THR CA CB sing N N 249 THR CA HA sing N N 250 THR C O doub N N 251 THR C OXT sing N N 252 THR CB OG1 sing N N 253 THR CB CG2 sing N N 254 THR CB HB sing N N 255 THR OG1 HG1 sing N N 256 THR CG2 HG21 sing N N 257 THR CG2 HG22 sing N N 258 THR CG2 HG23 sing N N 259 THR OXT HXT sing N N 260 TYR N CA sing N N 261 TYR N H sing N N 262 TYR N H2 sing N N 263 TYR CA C sing N N 264 TYR CA CB sing N N 265 TYR CA HA sing N N 266 TYR C O doub N N 267 TYR C OXT sing N N 268 TYR CB CG sing N N 269 TYR CB HB2 sing N N 270 TYR CB HB3 sing N N 271 TYR CG CD1 doub Y N 272 TYR CG CD2 sing Y N 273 TYR CD1 CE1 sing Y N 274 TYR CD1 HD1 sing N N 275 TYR CD2 CE2 doub Y N 276 TYR CD2 HD2 sing N N 277 TYR CE1 CZ doub Y N 278 TYR CE1 HE1 sing N N 279 TYR CE2 CZ sing Y N 280 TYR CE2 HE2 sing N N 281 TYR CZ OH sing N N 282 TYR OH HH sing N N 283 TYR OXT HXT sing N N 284 VAL N CA sing N N 285 VAL N H sing N N 286 VAL N H2 sing N N 287 VAL CA C sing N N 288 VAL CA CB sing N N 289 VAL CA HA sing N N 290 VAL C O doub N N 291 VAL C OXT sing N N 292 VAL CB CG1 sing N N 293 VAL CB CG2 sing N N 294 VAL CB HB sing N N 295 VAL CG1 HG11 sing N N 296 VAL CG1 HG12 sing N N 297 VAL CG1 HG13 sing N N 298 VAL CG2 HG21 sing N N 299 VAL CG2 HG22 sing N N 300 VAL CG2 HG23 sing N N 301 VAL OXT HXT sing N N 302 # _pdbx_initial_refinement_model.accession_code 1PLC _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details 'POPLAR PLASTOCYANIN' # _atom_sites.entry_id 1KDJ _atom_sites.fract_transf_matrix[1][1] 0.013677 _atom_sites.fract_transf_matrix[1][2] 0.007896 _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] 0.015792 _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] 0.032160 _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 CU N O S # loop_