data_1PFE
# 
_entry.id   1PFE 
# 
_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   1PFE         pdb_00001pfe 10.2210/pdb1pfe/pdb 
NDB   DD0057       ?            ?                   
RCSB  RCSB019291   ?            ?                   
WWPDB D_1000019291 ?            ?                   
# 
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 2004-06-08 
2 'Structure model' 1 1 2011-06-14 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2011-07-27 
5 'Structure model' 1 4 2012-12-12 
6 'Structure model' 1 5 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' 'Atomic model'              
4  4 'Structure model' 'Database references'       
5  4 'Structure model' 'Derived calculations'      
6  4 'Structure model' 'Non-polymer description'   
7  4 'Structure model' 'Structure summary'         
8  5 'Structure model' Other                       
9  6 'Structure model' Advisory                    
10 6 'Structure model' 'Data collection'           
11 6 'Structure model' 'Database references'       
12 6 'Structure model' 'Derived calculations'      
13 6 '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 6 'Structure model' chem_comp_atom                
2 6 'Structure model' chem_comp_bond                
3 6 'Structure model' database_2                    
4 6 'Structure model' diffrn_source                 
5 6 'Structure model' pdbx_initial_refinement_model 
6 6 'Structure model' pdbx_validate_polymer_linkage 
7 6 'Structure model' struct_conn                   
8 6 'Structure model' struct_ref_seq_dif            
9 6 'Structure model' struct_site                   
# 
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  6 'Structure model' '_database_2.pdbx_DOI'                 
2  6 'Structure model' '_database_2.pdbx_database_accession'  
3  6 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 
4  6 'Structure model' '_struct_conn.pdbx_dist_value'         
5  6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'  
6  6 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 
7  6 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 
8  6 'Structure model' '_struct_conn.ptnr1_auth_comp_id'      
9  6 'Structure model' '_struct_conn.ptnr1_label_atom_id'     
10 6 'Structure model' '_struct_conn.ptnr1_label_comp_id'     
11 6 'Structure model' '_struct_conn.ptnr2_auth_comp_id'      
12 6 'Structure model' '_struct_conn.ptnr2_auth_seq_id'       
13 6 'Structure model' '_struct_conn.ptnr2_label_asym_id'     
14 6 'Structure model' '_struct_conn.ptnr2_label_atom_id'     
15 6 'Structure model' '_struct_conn.ptnr2_label_comp_id'     
16 6 'Structure model' '_struct_conn.ptnr2_label_seq_id'      
17 6 'Structure model' '_struct_ref_seq_dif.details'          
18 6 'Structure model' '_struct_site.pdbx_auth_asym_id'       
19 6 'Structure model' '_struct_site.pdbx_auth_comp_id'       
20 6 'Structure model' '_struct_site.pdbx_auth_seq_id'        
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1PFE 
_pdbx_database_status.recvd_initial_deposition_date   2003-05-26 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    RCSB 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.SG_entry                        ? 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.methods_development_category    ? 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_nmr_data            ? 
# 
loop_
_pdbx_database_related.db_name 
_pdbx_database_related.db_id 
_pdbx_database_related.content_type 
_pdbx_database_related.details 
PDB 185D unspecified 'SOLUTION STRUCTURE OF D(GACGTC) COMPLEXED WITH TRIOSTIN A'                                 
PDB 193D unspecified 'SOLUTION STRUCTURE OF D(ACACGTGT) COMPLEXED WITH QUINOMYCIN UK-6305'                       
PDB 1VS2 unspecified 'CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH TRIOSIN A'                                 
PDB 1XVK unspecified 'CRYSTAL STRUCTURE OF D(GCGTACGC) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632'            
PDB 1XVN unspecified 'CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P632'            
PDB 1XVR unspecified 'CRYSTAL STRUCTURE OF D(CGTACG) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP C21'               
PDB 2ADW unspecified 'CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P42212'          
PDB 2DA8 unspecified 'SOLUTION STRUCTURE OF D(GATATC) COMPLEXED WITH A MODIFIED TRIOSTIN A AT POSITIONS 4 AND 8' 
PDB 3GO3 unspecified 'CRYSTAL STRUCTURE OF D(ACGTACGT) COMPLEXED WITH ECHINOMYCIN - SPACE GROUP P41212'          
# 
_audit_author.name           'Cuesta-Seijo, J.A.' 
_audit_author.pdbx_ordinal   1 
# 
_citation.id                        primary 
_citation.title                     'Structures of Complexes between Echinomycin and Duplex DNA.' 
_citation.journal_abbrev            'Acta Crystallogr.,Sect.D' 
_citation.journal_volume            61 
_citation.page_first                442 
_citation.page_last                 ? 
_citation.year                      2005 
_citation.journal_id_ASTM           ABCRE6 
_citation.country                   DK 
_citation.journal_id_ISSN           0907-4449 
_citation.journal_id_CSD            0766 
_citation.book_publisher            ? 
_citation.pdbx_database_id_PubMed   15805599 
_citation.pdbx_database_id_DOI      10.1107/S090744490500137X 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Cuesta-Seijo, J.A.' 1 ? 
primary 'Sheldrick, G.M.'    2 ? 
# 
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     syn "5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3'" 2427.605 1  ? ? ? ? 
2 polymer     nat ECHINOMYCIN                        809.008  1  ? ? ? ? 
3 non-polymer syn 'CHLORIDE ION'                     35.453   1  ? ? ? ? 
4 non-polymer syn 2-CARBOXYQUINOXALINE               174.156  2  ? ? ? ? 
5 water       nat water                              18.015   80 ? ? ? ? 
# 
_entity_name_com.entity_id   2 
_entity_name_com.name        'QUINOMYCIN A' 
# 
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 polydeoxyribonucleotide no no  '(DG)(DC)(DG)(DT)(DA)(DC)(DG)(DC)' GCGTACGC A ? 
2 'polypeptide(L)'        no yes '(DSN)A(N2C)(MVA)(DSN)A(NCY)(MVA)' SAXVSAXV B ? 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
3 'CHLORIDE ION'       CL  
4 2-CARBOXYQUINOXALINE QUI 
5 water                HOH 
# 
loop_
_entity_poly_seq.entity_id 
_entity_poly_seq.num 
_entity_poly_seq.mon_id 
_entity_poly_seq.hetero 
1 1 DG  n 
1 2 DC  n 
1 3 DG  n 
1 4 DT  n 
1 5 DA  n 
1 6 DC  n 
1 7 DG  n 
1 8 DC  n 
2 1 DSN n 
2 2 ALA n 
2 3 N2C y 
2 3 NCY y 
2 4 MVA n 
2 5 DSN n 
2 6 ALA n 
2 7 NCY y 
2 7 N2C y 
2 8 MVA n 
# 
_entity_src_nat.entity_id                  2 
_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   'STREPTOMYCES ECHINATUS' 
_entity_src_nat.pdbx_ncbi_taxonomy_id      67293 
_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                    ? 
# 
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  
CL  non-polymer         . 'CHLORIDE ION'                       ? 'Cl -1'           35.453  
DA  'DNA linking'       y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 
DC  'DNA linking'       y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE"  ? 'C9 H14 N3 O7 P'  307.197 
DG  'DNA linking'       y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 
DSN 'D-peptide linking' . D-SERINE                             ? 'C3 H7 N O3'      105.093 
DT  'DNA linking'       y "THYMIDINE-5'-MONOPHOSPHATE"         ? 'C10 H15 N2 O8 P' 322.208 
HOH non-polymer         . WATER                                ? 'H2 O'            18.015  
MVA 'L-peptide linking' n N-METHYLVALINE                       ? 'C6 H13 N O2'     131.173 
N2C 'L-peptide linking' . N,S-DIMETHYLCYSTEINE                 ? 'C5 H11 N O2 S'   149.211 
NCY 'L-peptide linking' . N-METHYLCYSTEINE                     ? 'C4 H9 N O2 S'    135.185 
QUI non-polymer         . 2-CARBOXYQUINOXALINE                 ? 'C9 H6 N2 O2'     174.156 
# 
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 DG  1 1 1 DG  DG  A . n 
A 1 2 DC  2 2 2 DC  DC  A . n 
A 1 3 DG  3 3 3 DG  DG  A . n 
A 1 4 DT  4 4 4 DT  DT  A . n 
A 1 5 DA  5 5 5 DA  DA  A . n 
A 1 6 DC  6 6 6 DC  DC  A . n 
A 1 7 DG  7 7 7 DG  DG  A . n 
A 1 8 DC  8 8 8 DC  DC  A . n 
B 2 1 DSN 1 1 1 DSN DSN B . n 
B 2 2 ALA 2 2 2 ALA ALA B . n 
B 2 3 N2C 3 3 3 N2C N2C B . y 
B 2 3 NCY 3 3 3 NCY NCY B . y 
B 2 4 MVA 4 4 4 MVA MVA B . n 
B 2 5 DSN 5 5 5 DSN DSN B . n 
B 2 6 ALA 6 6 6 ALA ALA B . n 
B 2 7 NCY 7 7 7 NCY NCY B . y 
B 2 7 N2C 7 7 7 N2C N2C B . y 
B 2 8 MVA 8 8 8 MVA MVA B . n 
# 
loop_
_pdbx_nonpoly_scheme.asym_id 
_pdbx_nonpoly_scheme.entity_id 
_pdbx_nonpoly_scheme.mon_id 
_pdbx_nonpoly_scheme.ndb_seq_num 
_pdbx_nonpoly_scheme.pdb_seq_num 
_pdbx_nonpoly_scheme.auth_seq_num 
_pdbx_nonpoly_scheme.pdb_mon_id 
_pdbx_nonpoly_scheme.auth_mon_id 
_pdbx_nonpoly_scheme.pdb_strand_id 
_pdbx_nonpoly_scheme.pdb_ins_code 
C 3 CL  1  20   20   CL  CL  A . 
D 4 QUI 1  0    0    QUI QUI B . 
E 4 QUI 1  9    9    QUI QUI B . 
F 5 HOH 1  2001 2001 HOH HOH A . 
F 5 HOH 2  2002 2002 HOH HOH A . 
F 5 HOH 3  2003 2003 HOH HOH A . 
F 5 HOH 4  2004 2004 HOH HOH A . 
F 5 HOH 5  2005 2005 HOH HOH A . 
F 5 HOH 6  2006 2006 HOH HOH A . 
F 5 HOH 7  2007 2007 HOH HOH A . 
F 5 HOH 8  2008 2008 HOH HOH A . 
F 5 HOH 9  2009 2009 HOH HOH A . 
F 5 HOH 10 2010 2010 HOH HOH A . 
F 5 HOH 11 2011 2011 HOH HOH A . 
F 5 HOH 12 2012 2012 HOH HOH A . 
F 5 HOH 13 2013 2013 HOH HOH A . 
F 5 HOH 14 2014 2014 HOH HOH A . 
F 5 HOH 15 2015 2015 HOH HOH A . 
F 5 HOH 16 2016 2016 HOH HOH A . 
F 5 HOH 17 2017 2017 HOH HOH A . 
F 5 HOH 18 2018 2018 HOH HOH A . 
F 5 HOH 19 2019 2019 HOH HOH A . 
F 5 HOH 20 2020 2020 HOH HOH A . 
F 5 HOH 21 2021 2021 HOH HOH A . 
F 5 HOH 22 2022 2022 HOH HOH A . 
F 5 HOH 23 2023 2023 HOH HOH A . 
F 5 HOH 24 2024 2024 HOH HOH A . 
F 5 HOH 25 2025 2025 HOH HOH A . 
F 5 HOH 26 2026 2026 HOH HOH A . 
F 5 HOH 27 2027 2027 HOH HOH A . 
F 5 HOH 28 2028 2028 HOH HOH A . 
F 5 HOH 29 2029 2029 HOH HOH A . 
F 5 HOH 30 2030 2030 HOH HOH A . 
F 5 HOH 31 2031 2031 HOH HOH A . 
F 5 HOH 32 2032 2032 HOH HOH A . 
F 5 HOH 33 2033 2033 HOH HOH A . 
F 5 HOH 34 2034 2034 HOH HOH A . 
F 5 HOH 35 2035 2035 HOH HOH A . 
F 5 HOH 36 2036 2036 HOH HOH A . 
F 5 HOH 37 2037 2037 HOH HOH A . 
F 5 HOH 38 2038 2038 HOH HOH A . 
F 5 HOH 39 2039 2039 HOH HOH A . 
F 5 HOH 40 2040 2040 HOH HOH A . 
F 5 HOH 41 2041 2041 HOH HOH A . 
F 5 HOH 42 2042 2042 HOH HOH A . 
F 5 HOH 43 2043 2043 HOH HOH A . 
F 5 HOH 44 2044 2044 HOH HOH A . 
F 5 HOH 45 2045 2045 HOH HOH A . 
F 5 HOH 46 2046 2046 HOH HOH A . 
F 5 HOH 47 2047 2047 HOH HOH A . 
F 5 HOH 48 2048 2048 HOH HOH A . 
F 5 HOH 49 2049 2049 HOH HOH A . 
F 5 HOH 50 2050 2050 HOH HOH A . 
F 5 HOH 51 2051 2051 HOH HOH A . 
F 5 HOH 52 2052 2052 HOH HOH A . 
F 5 HOH 53 2053 2053 HOH HOH A . 
F 5 HOH 54 2054 2054 HOH HOH A . 
F 5 HOH 55 2055 2055 HOH HOH A . 
F 5 HOH 56 2056 2056 HOH HOH A . 
F 5 HOH 57 2057 2057 HOH HOH A . 
F 5 HOH 58 2058 2058 HOH HOH A . 
F 5 HOH 59 2059 2059 HOH HOH A . 
F 5 HOH 60 2060 2060 HOH HOH A . 
F 5 HOH 61 2061 2061 HOH HOH A . 
F 5 HOH 62 2062 2062 HOH HOH A . 
F 5 HOH 63 2063 2063 HOH HOH A . 
F 5 HOH 64 2064 2064 HOH HOH A . 
F 5 HOH 65 2065 2065 HOH HOH A . 
F 5 HOH 66 2066 2066 HOH HOH A . 
F 5 HOH 67 2067 2067 HOH HOH A . 
F 5 HOH 68 2068 2068 HOH HOH A . 
F 5 HOH 69 2069 2069 HOH HOH A . 
F 5 HOH 70 2070 2070 HOH HOH A . 
G 5 HOH 1  2001 2001 HOH HOH B . 
G 5 HOH 2  2002 2002 HOH HOH B . 
G 5 HOH 3  2003 2003 HOH HOH B . 
G 5 HOH 4  2004 2004 HOH HOH B . 
G 5 HOH 5  2005 2005 HOH HOH B . 
G 5 HOH 6  2006 2006 HOH HOH B . 
G 5 HOH 7  2007 2007 HOH HOH B . 
G 5 HOH 8  2008 2008 HOH HOH B . 
G 5 HOH 9  2009 2009 HOH HOH B . 
G 5 HOH 10 2010 2010 HOH HOH B . 
# 
loop_
_pdbx_unobs_or_zero_occ_atoms.id 
_pdbx_unobs_or_zero_occ_atoms.PDB_model_num 
_pdbx_unobs_or_zero_occ_atoms.polymer_flag 
_pdbx_unobs_or_zero_occ_atoms.occupancy_flag 
_pdbx_unobs_or_zero_occ_atoms.auth_asym_id 
_pdbx_unobs_or_zero_occ_atoms.auth_comp_id 
_pdbx_unobs_or_zero_occ_atoms.auth_seq_id 
_pdbx_unobs_or_zero_occ_atoms.PDB_ins_code 
_pdbx_unobs_or_zero_occ_atoms.auth_atom_id 
_pdbx_unobs_or_zero_occ_atoms.label_alt_id 
_pdbx_unobs_or_zero_occ_atoms.label_asym_id 
_pdbx_unobs_or_zero_occ_atoms.label_comp_id 
_pdbx_unobs_or_zero_occ_atoms.label_seq_id 
_pdbx_unobs_or_zero_occ_atoms.label_atom_id 
1 1 Y 1 B N2C 3 ? CD ? B N2C 3 CD 
2 1 Y 1 B NCY 7 ? CD ? B NCY 7 CD 
# 
loop_
_software.name 
_software.classification 
_software.version 
_software.citation_id 
_software.pdbx_ordinal 
EPMR      phasing          . ? 1 
SHELXL-97 refinement       . ? 2 
DENZO     'data reduction' . ? 3 
SCALEPACK 'data scaling'   . ? 4 
# 
_cell.entry_id           1PFE 
_cell.length_a           39.374 
_cell.length_b           39.374 
_cell.length_c           79.734 
_cell.angle_alpha        90.00 
_cell.angle_beta         90.00 
_cell.angle_gamma        120.00 
_cell.Z_PDB              12 
_cell.pdbx_unique_axis   ? 
_cell.length_a_esd       ? 
_cell.length_b_esd       ? 
_cell.length_c_esd       ? 
_cell.angle_alpha_esd    ? 
_cell.angle_beta_esd     ? 
_cell.angle_gamma_esd    ? 
# 
_symmetry.entry_id                         1PFE 
_symmetry.space_group_name_H-M             'P 63 2 2' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     ? 
_symmetry.Int_Tables_number                182 
_symmetry.space_group_name_Hall            ? 
# 
_exptl.entry_id          1PFE 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_Matthews      3.51 
_exptl_crystal.density_percent_sol   64.98 
_exptl_crystal.description           ? 
_exptl_crystal.F_000                 ? 
_exptl_crystal.preparation           ? 
# 
_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    
'LI2SO4, MGCL2, METHANOL, NAAC, SPERMINE, PH 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K' 
# 
loop_
_exptl_crystal_grow_comp.crystal_id 
_exptl_crystal_grow_comp.id 
_exptl_crystal_grow_comp.sol_id 
_exptl_crystal_grow_comp.name 
_exptl_crystal_grow_comp.volume 
_exptl_crystal_grow_comp.conc 
_exptl_crystal_grow_comp.details 
1 1 1 Li2SO4   ? ? ? 
1 2 1 MgCl2    ? ? ? 
1 3 1 Methanol ? ? ? 
1 4 1 NaAc     ? ? ? 
1 5 1 Spermine ? ? ? 
1 6 1 H2O      ? ? ? 
1 7 2 MgCl2    ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           100 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               CCD 
_diffrn_detector.type                   MARRESEARCH 
_diffrn_detector.pdbx_collection_date   2002-11-19 
_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                    'TRIANGULAR MONOCHROMATOR' 
_diffrn_radiation.pdbx_diffrn_protocol             'SINGLE WAVELENGTH' 
_diffrn_radiation.pdbx_scattering_type             x-ray 
# 
_diffrn_radiation_wavelength.id           1 
_diffrn_radiation_wavelength.wavelength   0.8162 
_diffrn_radiation_wavelength.wt           1.0 
# 
_diffrn_source.diffrn_id                   1 
_diffrn_source.source                      SYNCHROTRON 
_diffrn_source.type                        'EMBL/DESY, HAMBURG BEAMLINE X11' 
_diffrn_source.pdbx_synchrotron_site       'EMBL/DESY, HAMBURG' 
_diffrn_source.pdbx_synchrotron_beamline   X11 
_diffrn_source.pdbx_wavelength             0.8162 
_diffrn_source.pdbx_wavelength_list        ? 
# 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
_reflns.entry_id                     1PFE 
_reflns.observed_criterion_sigma_I   0.000 
_reflns.observed_criterion_sigma_F   ? 
_reflns.d_resolution_low             21.000 
_reflns.d_resolution_high            1.100 
_reflns.number_obs                   15164 
_reflns.number_all                   ? 
_reflns.percent_possible_obs         97.2 
_reflns.pdbx_Rmerge_I_obs            0.04900 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        30.0100 
_reflns.B_iso_Wilson_estimate        ? 
_reflns.pdbx_redundancy              14.910 
_reflns.R_free_details               ? 
_reflns.pdbx_chi_squared             ? 
_reflns.pdbx_scaling_rejects         ? 
# 
_reflns_shell.pdbx_diffrn_id         1 
_reflns_shell.pdbx_ordinal           1 
_reflns_shell.d_res_high             1.10 
_reflns_shell.d_res_low              1.20 
_reflns_shell.percent_possible_all   95.7 
_reflns_shell.Rmerge_I_obs           0.24200 
_reflns_shell.pdbx_Rsym_value        ? 
_reflns_shell.meanI_over_sigI_obs    11.480 
_reflns_shell.pdbx_redundancy        13.05 
_reflns_shell.percent_possible_obs   ? 
_reflns_shell.number_unique_all      ? 
_reflns_shell.number_measured_all    ? 
_reflns_shell.number_measured_obs    ? 
_reflns_shell.number_unique_obs      ? 
_reflns_shell.pdbx_chi_squared       ? 
# 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.entry_id                                 1PFE 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_refine.ls_number_reflns_obs                     ? 
_refine.ls_number_reflns_all                     15164 
_refine.pdbx_ls_sigma_I                          ? 
_refine.pdbx_ls_sigma_F                          0.000 
_refine.pdbx_data_cutoff_high_absF               ? 
_refine.pdbx_data_cutoff_low_absF                ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.ls_d_res_low                             21.00 
_refine.ls_d_res_high                            1.10 
_refine.ls_percent_reflns_obs                    97.2 
_refine.ls_R_factor_obs                          0.146 
_refine.ls_R_factor_all                          0.146 
_refine.ls_R_factor_R_work                       ? 
_refine.ls_R_factor_R_free                       0.168 
_refine.ls_R_factor_R_free_error                 ? 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 3.000 
_refine.ls_number_reflns_R_free                  478 
_refine.ls_number_parameters                     2979 
_refine.ls_number_restraints                     2074 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.correlation_coeff_Fo_to_Fc               ? 
_refine.correlation_coeff_Fo_to_Fc_free          ? 
_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_solvent_vdw_probe_radii             ? 
_refine.pdbx_solvent_ion_probe_radii             ? 
_refine.pdbx_solvent_shrinkage_radii             ? 
_refine.pdbx_ls_cross_valid_method               'FREE R' 
_refine.details                                  
;THE SKELETON OF ECHINOMYCIN IS NEARLY SYMMETRIC (NOT MODELLED TO DO SO), THE BRIDGE IS NOT. BOTH POSSIBLE ORIENTATIONS OF BINDING WERE OBSERVED, BUT SKELETON POSITIONS NEARLY OVERLAP, SO ONLY THE BRIDGE WAS MODELLED AS DISORDERED/MICROHETEROGENEITY.
;
_refine.pdbx_starting_model                      'TROSTIN A - (GCGTACGC)2 COMPLEX' 
_refine.pdbx_method_to_determine_struct          'MOLECULAR REPLACEMENT' 
_refine.pdbx_isotropic_thermal_model             ? 
_refine.pdbx_stereochemistry_target_values       
'STANDARD SHELX FOR THE DNA, ENGH & HUBER FOR THE STANDARD PROTEIN PARTS OF ECHINOMYCIN, BUILT FROM THE CSD FOR THE REST' 
_refine.pdbx_stereochem_target_val_spec_case     'TARGETS FOR ECHINOMYCIN BUILT FROM THE CSD' 
_refine.pdbx_R_Free_selection_details            'THIN SHELLS' 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_overall_ESU_R_Free                  ? 
_refine.overall_SU_ML                            ? 
_refine.pdbx_overall_phase_error                 ? 
_refine.overall_SU_B                             ? 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI   ? 
_refine.pdbx_overall_SU_R_Blow_DPI               ? 
_refine.pdbx_overall_SU_R_free_Blow_DPI          ? 
_refine.ls_redundancy_reflns_obs                 ? 
_refine.overall_SU_R_free                        ? 
_refine.ls_wR_factor_R_free                      ? 
_refine.ls_wR_factor_R_work                      ? 
_refine.overall_FOM_free_R_set                   ? 
_refine.overall_FOM_work_R_set                   ? 
# 
_refine_analyze.pdbx_refine_id                  'X-RAY DIFFRACTION' 
_refine_analyze.entry_id                        1PFE 
_refine_analyze.Luzzati_coordinate_error_obs    ? 
_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      7 
_refine_analyze.occupancy_sum_hydrogen          149.00 
_refine_analyze.occupancy_sum_non_hydrogen      303.00 
# 
_refine_hist.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_hist.cycle_id                         LAST 
_refine_hist.pdbx_number_atoms_protein        66 
_refine_hist.pdbx_number_atoms_nucleic_acid   161 
_refine_hist.pdbx_number_atoms_ligand         25 
_refine_hist.number_atoms_solvent             80 
_refine_hist.number_atoms_total               332 
_refine_hist.d_res_high                       1.10 
_refine_hist.d_res_low                        21.00 
# 
loop_
_refine_ls_restr.type 
_refine_ls_restr.dev_ideal 
_refine_ls_restr.dev_ideal_target 
_refine_ls_restr.weight 
_refine_ls_restr.number 
_refine_ls_restr.pdbx_refine_id 
_refine_ls_restr.pdbx_restraint_function 
s_bond_d               0.022 ? ? ? 'X-RAY DIFFRACTION' ? 
s_angle_d              0.036 ? ? ? 'X-RAY DIFFRACTION' ? 
s_similar_dist         ?     ? ? ? 'X-RAY DIFFRACTION' ? 
s_from_restr_planes    0.172 ? ? ? 'X-RAY DIFFRACTION' ? 
s_zero_chiral_vol      0.068 ? ? ? 'X-RAY DIFFRACTION' ? 
s_non_zero_chiral_vol  0.059 ? ? ? 'X-RAY DIFFRACTION' ? 
s_anti_bump_dis_restr  0.041 ? ? ? 'X-RAY DIFFRACTION' ? 
s_rigid_bond_adp_cmpnt ?     ? ? ? 'X-RAY DIFFRACTION' ? 
s_similar_adp_cmpnt    ?     ? ? ? 'X-RAY DIFFRACTION' ? 
s_approx_iso_adps      ?     ? ? ? 'X-RAY DIFFRACTION' ? 
# 
_refine_ls_shell.pdbx_total_number_of_bins_used   ? 
_refine_ls_shell.d_res_high                       1.1 
_refine_ls_shell.d_res_low                        1.2 
_refine_ls_shell.number_reflns_R_work             ? 
_refine_ls_shell.R_factor_R_work                  ? 
_refine_ls_shell.percent_reflns_obs               95.7 
_refine_ls_shell.R_factor_R_free                  ? 
_refine_ls_shell.R_factor_R_free_error            ? 
_refine_ls_shell.percent_reflns_R_free            ? 
_refine_ls_shell.number_reflns_R_free             ? 
_refine_ls_shell.redundancy_reflns_obs            ? 
_refine_ls_shell.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_ls_shell.number_reflns_all                ? 
_refine_ls_shell.number_reflns_obs                ? 
_refine_ls_shell.R_factor_all                     ? 
# 
_pdbx_refine.pdbx_refine_id                              'X-RAY DIFFRACTION' 
_pdbx_refine.entry_id                                    1PFE 
_pdbx_refine.R_factor_all_no_cutoff                      0.146 
_pdbx_refine.R_factor_obs_no_cutoff                      0.146 
_pdbx_refine.free_R_factor_no_cutoff                     0.168 
_pdbx_refine.free_R_error_no_cutoff                      ? 
_pdbx_refine.free_R_val_test_set_size_perc_no_cutoff     3.000 
_pdbx_refine.free_R_val_test_set_ct_no_cutoff            478 
_pdbx_refine.R_factor_all_4sig_cutoff                    ? 
_pdbx_refine.R_factor_obs_4sig_cutoff                    0.138 
_pdbx_refine.free_R_factor_4sig_cutoff                   0.160 
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff   ? 
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff          ? 
_pdbx_refine.number_reflns_obs_4sig_cutoff               ? 
# 
_database_PDB_matrix.entry_id          1PFE 
_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                  1PFE 
_struct.title                     'Echinomycin-(gcgtacgc)2 complex' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1PFE 
_struct_keywords.pdbx_keywords   DNA/ANTIBIOTIC 
_struct_keywords.text            
'BISINTERCALATOR, HOOGSTEEN BASEPAIR, DEPSIPEPTIDE, QUINOXALINE, THIOACETAL, ANTIBIOTIC, ANTITUMOR, DNA-ANTIBIOTIC COMPLEX' 
# 
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 4 ? 
F N N 5 ? 
G N N 5 ? 
# 
loop_
_struct_ref.id 
_struct_ref.db_name 
_struct_ref.db_code 
_struct_ref.entity_id 
_struct_ref.pdbx_seq_one_letter_code 
_struct_ref.pdbx_align_begin 
_struct_ref.pdbx_db_accession 
_struct_ref.pdbx_db_isoform 
1 PDB 1PFE     1 ? ? 1PFE     ? 
2 NOR NOR01126 2 ? ? NOR01126 ? 
# 
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 1PFE A 1 ? 8 ? 1PFE     1 ? 8 ? 1 8 
2 2 1PFE B 1 ? 8 ? NOR01126 1 ? 8 ? 1 8 
# 
loop_
_struct_ref_seq_dif.align_id 
_struct_ref_seq_dif.pdbx_pdb_id_code 
_struct_ref_seq_dif.mon_id 
_struct_ref_seq_dif.pdbx_pdb_strand_id 
_struct_ref_seq_dif.seq_num 
_struct_ref_seq_dif.pdbx_pdb_ins_code 
_struct_ref_seq_dif.pdbx_seq_db_name 
_struct_ref_seq_dif.pdbx_seq_db_accession_code 
_struct_ref_seq_dif.db_mon_id 
_struct_ref_seq_dif.pdbx_seq_db_seq_num 
_struct_ref_seq_dif.details 
_struct_ref_seq_dif.pdbx_auth_seq_num 
_struct_ref_seq_dif.pdbx_ordinal 
2 1PFE N2C B 3 ? NOR NOR01126 NCY 3 microheterogeneity 3 1 
2 1PFE NCY B 7 ? NOR NOR01126 N2C 7 microheterogeneity 7 2 
# 
_pdbx_struct_assembly.id                   1 
_pdbx_struct_assembly.details              software_defined_assembly 
_pdbx_struct_assembly.method_details       PISA 
_pdbx_struct_assembly.oligomeric_details   tetrameric 
_pdbx_struct_assembly.oligomeric_count     4 
# 
loop_
_pdbx_struct_assembly_prop.biol_id 
_pdbx_struct_assembly_prop.type 
_pdbx_struct_assembly_prop.value 
_pdbx_struct_assembly_prop.details 
1 'ABSA (A^2)' 730  ? 
1 MORE         -6.4 ? 
1 'SSA (A^2)'  3960 ? 
# 
_pdbx_struct_assembly_gen.assembly_id       1 
_pdbx_struct_assembly_gen.oper_expression   1,2 
_pdbx_struct_assembly_gen.asym_id_list      A,B,C,D,E,F,G 
# 
loop_
_pdbx_struct_oper_list.id 
_pdbx_struct_oper_list.type 
_pdbx_struct_oper_list.name 
_pdbx_struct_oper_list.symmetry_operation 
_pdbx_struct_oper_list.matrix[1][1] 
_pdbx_struct_oper_list.matrix[1][2] 
_pdbx_struct_oper_list.matrix[1][3] 
_pdbx_struct_oper_list.vector[1] 
_pdbx_struct_oper_list.matrix[2][1] 
_pdbx_struct_oper_list.matrix[2][2] 
_pdbx_struct_oper_list.matrix[2][3] 
_pdbx_struct_oper_list.vector[2] 
_pdbx_struct_oper_list.matrix[3][1] 
_pdbx_struct_oper_list.matrix[3][2] 
_pdbx_struct_oper_list.matrix[3][3] 
_pdbx_struct_oper_list.vector[3] 
1 'identity operation'         1_555 x,y,z      1.0000000000  0.0000000000  0.0000000000 0.0000000000 0.0000000000  1.0000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000  0.0000000000 
2 'crystal symmetry operation' 9_555 -x,-x+y,-z -0.5000000000 -0.8660254038 0.0000000000 0.0000000000 -0.8660254038 0.5000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 
# 
_struct_biol.id                    1 
_struct_biol.details               'The second part of the biological assembly is generated by:  -x, -x+y, -z' 
_struct_biol.pdbx_parent_biol_id   ? 
# 
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 
covale1  covale both ? D QUI . C  ? ? ? 1_555 B DSN 1 N  ? ? B QUI 0 B DSN 1 1_555 ? ? ? ? ? ? ?            1.345 ? ? 
covale2  covale both ? B DSN 1 C  ? ? ? 1_555 B ALA 2 N  ? ? B DSN 1 B ALA 2 1_555 ? ? ? ? ? ? ?            1.352 ? ? 
covale3  covale one  ? B DSN 1 OG ? ? ? 1_555 B MVA 8 C  ? ? B DSN 1 B MVA 8 1_555 ? ? ? ? ? ? ?            1.325 ? ? 
covale4  covale both ? B ALA 2 C  ? ? ? 1_555 B N2C 3 N  A ? B ALA 2 B N2C 3 1_555 ? ? ? ? ? ? ?            1.355 ? ? 
covale5  covale both ? B ALA 2 C  ? ? ? 1_555 B NCY 3 N  B ? B ALA 2 B NCY 3 1_555 ? ? ? ? ? ? ?            1.355 ? ? 
covale6  covale both ? B NCY 3 C  B ? ? 1_555 B MVA 4 N  ? ? B NCY 3 B MVA 4 1_555 ? ? ? ? ? ? ?            1.338 ? ? 
covale7  covale both ? B N2C 3 C  A ? ? 1_555 B MVA 4 N  ? ? B N2C 3 B MVA 4 1_555 ? ? ? ? ? ? ?            1.338 ? ? 
covale8  covale both ? B N2C 3 CB A ? ? 1_555 B NCY 7 SG A ? B N2C 3 B NCY 7 1_555 ? ? ? ? ? ? ?            1.796 ? ? 
covale9  covale both ? B NCY 3 SG B ? ? 1_555 B N2C 7 CB B ? B NCY 3 B N2C 7 1_555 ? ? ? ? ? ? ?            1.814 ? ? 
covale10 covale one  ? B MVA 4 C  ? ? ? 1_555 B DSN 5 OG ? ? B MVA 4 B DSN 5 1_555 ? ? ? ? ? ? ?            1.326 ? ? 
covale11 covale both ? B DSN 5 C  ? ? ? 1_555 B ALA 6 N  ? ? B DSN 5 B ALA 6 1_555 ? ? ? ? ? ? ?            1.317 ? ? 
covale12 covale both ? B DSN 5 N  ? ? ? 1_555 E QUI . C  ? ? B DSN 5 B QUI 9 1_555 ? ? ? ? ? ? ?            1.365 ? ? 
covale13 covale both ? B ALA 6 C  ? ? ? 1_555 B NCY 7 N  A ? B ALA 6 B NCY 7 1_555 ? ? ? ? ? ? ?            1.354 ? ? 
covale14 covale both ? B ALA 6 C  ? ? ? 1_555 B N2C 7 N  B ? B ALA 6 B N2C 7 1_555 ? ? ? ? ? ? ?            1.354 ? ? 
covale15 covale both ? B NCY 7 C  A ? ? 1_555 B MVA 8 N  ? ? B NCY 7 B MVA 8 1_555 ? ? ? ? ? ? ?            1.323 ? ? 
covale16 covale both ? B N2C 7 C  B ? ? 1_555 B MVA 8 N  ? ? B N2C 7 B MVA 8 1_555 ? ? ? ? ? ? ?            1.323 ? ? 
hydrog1  hydrog ?    ? A DG  1 O6 ? ? ? 1_555 A DC  8 N4 ? ? A DG  1 A DC  8 9_555 ? ? ? ? ? ? 'DG-DC PAIR' ?     ? ? 
hydrog2  hydrog ?    ? A DC  2 N3 ? ? ? 1_555 A DG  7 N1 ? ? A DC  2 A DG  7 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog3  hydrog ?    ? A DC  2 N4 ? ? ? 1_555 A DG  7 O6 ? ? A DC  2 A DG  7 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog4  hydrog ?    ? A DC  2 O2 ? ? ? 1_555 A DG  7 N2 ? ? A DC  2 A DG  7 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog5  hydrog ?    ? A DG  3 N1 ? ? ? 1_555 A DC  6 N3 ? ? A DG  3 A DC  6 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog6  hydrog ?    ? A DG  3 N2 ? ? ? 1_555 A DC  6 O2 ? ? A DG  3 A DC  6 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog7  hydrog ?    ? A DG  3 O6 ? ? ? 1_555 A DC  6 N4 ? ? A DG  3 A DC  6 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog8  hydrog ?    ? A DT  4 N3 ? ? ? 1_555 A DA  5 N7 ? ? A DT  4 A DA  5 9_555 ? ? ? ? ? ? HOOGSTEEN    ?     ? ? 
hydrog9  hydrog ?    ? A DT  4 O4 ? ? ? 1_555 A DA  5 N6 ? ? A DT  4 A DA  5 9_555 ? ? ? ? ? ? HOOGSTEEN    ?     ? ? 
hydrog10 hydrog ?    ? A DA  5 N6 ? ? ? 1_555 A DT  4 O4 ? ? A DA  5 A DT  4 9_555 ? ? ? ? ? ? HOOGSTEEN    ?     ? ? 
hydrog11 hydrog ?    ? A DA  5 N7 ? ? ? 1_555 A DT  4 N3 ? ? A DA  5 A DT  4 9_555 ? ? ? ? ? ? HOOGSTEEN    ?     ? ? 
hydrog12 hydrog ?    ? A DC  6 N3 ? ? ? 1_555 A DG  3 N1 ? ? A DC  6 A DG  3 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog13 hydrog ?    ? A DC  6 N4 ? ? ? 1_555 A DG  3 O6 ? ? A DC  6 A DG  3 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog14 hydrog ?    ? A DC  6 O2 ? ? ? 1_555 A DG  3 N2 ? ? A DC  6 A DG  3 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog15 hydrog ?    ? A DG  7 N1 ? ? ? 1_555 A DC  2 N3 ? ? A DG  7 A DC  2 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog16 hydrog ?    ? A DG  7 N2 ? ? ? 1_555 A DC  2 O2 ? ? A DG  7 A DC  2 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog17 hydrog ?    ? A DG  7 O6 ? ? ? 1_555 A DC  2 N4 ? ? A DG  7 A DC  2 9_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog18 hydrog ?    ? A DC  8 N4 ? ? ? 1_555 A DG  1 O6 ? ? A DC  8 A DG  1 9_555 ? ? ? ? ? ? 'DC-DG PAIR' ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
covale ? ? 
hydrog ? ? 
# 
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 A CL 20 ? 1  'BINDING SITE FOR RESIDUE CL A 20'        
AC2 Software ? ?  ?  ? 16 'BINDING SITE FOR CHAIN B OF ECHINOMYCIN' 
1   ?        ? ?  ?  ? ?  ?                                         
# 
loop_
_struct_site_gen.id 
_struct_site_gen.site_id 
_struct_site_gen.pdbx_num_res 
_struct_site_gen.label_comp_id 
_struct_site_gen.label_asym_id 
_struct_site_gen.label_seq_id 
_struct_site_gen.pdbx_auth_ins_code 
_struct_site_gen.auth_comp_id 
_struct_site_gen.auth_asym_id 
_struct_site_gen.auth_seq_id 
_struct_site_gen.label_atom_id 
_struct_site_gen.label_alt_id 
_struct_site_gen.symmetry 
_struct_site_gen.details 
1  AC1 1  HOH F . ? HOH A 2069 . ? 1_555 ? 
2  AC2 16 DG  A 1 ? DG  A 1    . ? 1_555 ? 
3  AC2 16 DC  A 2 ? DC  A 2    . ? 1_555 ? 
4  AC2 16 DG  A 3 ? DG  A 3    . ? 1_555 ? 
5  AC2 16 DT  A 4 ? DT  A 4    . ? 1_555 ? 
6  AC2 16 DA  A 5 ? DA  A 5    . ? 1_555 ? 
7  AC2 16 DC  A 6 ? DC  A 6    . ? 1_555 ? 
8  AC2 16 DG  A 7 ? DG  A 7    . ? 1_555 ? 
9  AC2 16 DC  A 8 ? DC  A 8    . ? 1_555 ? 
10 AC2 16 HOH G . ? HOH B 2001 . ? 1_555 ? 
11 AC2 16 HOH G . ? HOH B 2002 . ? 1_555 ? 
12 AC2 16 HOH G . ? HOH B 2003 . ? 1_555 ? 
13 AC2 16 HOH G . ? HOH B 2005 . ? 1_555 ? 
14 AC2 16 HOH G . ? HOH B 2006 . ? 1_555 ? 
15 AC2 16 HOH G . ? HOH B 2007 . ? 1_555 ? 
16 AC2 16 HOH G . ? HOH B 2009 . ? 1_555 ? 
17 AC2 16 HOH G . ? HOH B 2010 . ? 1_555 ? 
# 
loop_
_pdbx_validate_rmsd_bond.id 
_pdbx_validate_rmsd_bond.PDB_model_num 
_pdbx_validate_rmsd_bond.auth_atom_id_1 
_pdbx_validate_rmsd_bond.auth_asym_id_1 
_pdbx_validate_rmsd_bond.auth_comp_id_1 
_pdbx_validate_rmsd_bond.auth_seq_id_1 
_pdbx_validate_rmsd_bond.PDB_ins_code_1 
_pdbx_validate_rmsd_bond.label_alt_id_1 
_pdbx_validate_rmsd_bond.auth_atom_id_2 
_pdbx_validate_rmsd_bond.auth_asym_id_2 
_pdbx_validate_rmsd_bond.auth_comp_id_2 
_pdbx_validate_rmsd_bond.auth_seq_id_2 
_pdbx_validate_rmsd_bond.PDB_ins_code_2 
_pdbx_validate_rmsd_bond.label_alt_id_2 
_pdbx_validate_rmsd_bond.bond_value 
_pdbx_validate_rmsd_bond.bond_target_value 
_pdbx_validate_rmsd_bond.bond_deviation 
_pdbx_validate_rmsd_bond.bond_standard_deviation 
_pdbx_validate_rmsd_bond.linker_flag 
1 1 "C2'" A DG 1 ? A "C1'" A DG 1 ? ? 1.441 1.518 -0.077 0.010 N 
2 1 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? 1.531 1.420 0.111  0.011 N 
3 1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? 1.506 1.420 0.086  0.011 N 
4 1 "C2'" A DG 3 ? ? "C1'" A DG 3 ? ? 1.597 1.519 0.078  0.010 N 
5 1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? 1.332 1.418 -0.086 0.012 N 
6 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? 1.499 1.420 0.079  0.011 N 
7 1 "C2'" A DG 7 ? ? "C1'" A DG 7 ? ? 1.595 1.519 0.076  0.010 N 
8 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? 1.339 1.418 -0.079 0.012 N 
9 1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? 1.505 1.420 0.085  0.011 N 
# 
loop_
_pdbx_validate_rmsd_angle.id 
_pdbx_validate_rmsd_angle.PDB_model_num 
_pdbx_validate_rmsd_angle.auth_atom_id_1 
_pdbx_validate_rmsd_angle.auth_asym_id_1 
_pdbx_validate_rmsd_angle.auth_comp_id_1 
_pdbx_validate_rmsd_angle.auth_seq_id_1 
_pdbx_validate_rmsd_angle.PDB_ins_code_1 
_pdbx_validate_rmsd_angle.label_alt_id_1 
_pdbx_validate_rmsd_angle.auth_atom_id_2 
_pdbx_validate_rmsd_angle.auth_asym_id_2 
_pdbx_validate_rmsd_angle.auth_comp_id_2 
_pdbx_validate_rmsd_angle.auth_seq_id_2 
_pdbx_validate_rmsd_angle.PDB_ins_code_2 
_pdbx_validate_rmsd_angle.label_alt_id_2 
_pdbx_validate_rmsd_angle.auth_atom_id_3 
_pdbx_validate_rmsd_angle.auth_asym_id_3 
_pdbx_validate_rmsd_angle.auth_comp_id_3 
_pdbx_validate_rmsd_angle.auth_seq_id_3 
_pdbx_validate_rmsd_angle.PDB_ins_code_3 
_pdbx_validate_rmsd_angle.label_alt_id_3 
_pdbx_validate_rmsd_angle.angle_value 
_pdbx_validate_rmsd_angle.angle_target_value 
_pdbx_validate_rmsd_angle.angle_deviation 
_pdbx_validate_rmsd_angle.angle_standard_deviation 
_pdbx_validate_rmsd_angle.linker_flag 
1  1 "O4'" A DG 1 ? ? "C1'" A DG 1 ? ? N9    A DG 1 ? ? 99.34  108.00 -8.66 0.70 N 
2  1 "C5'" A DC 2 ? B "C4'" A DC 2 ? B "O4'" A DC 2 ? ? 119.18 109.80 9.38  1.10 N 
3  1 "O4'" A DC 2 ? ? "C1'" A DC 2 ? ? N1    A DC 2 ? ? 102.50 108.00 -5.50 0.70 N 
4  1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9    A DG 3 ? ? 115.21 108.30 6.91  0.30 N 
5  1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1    A DT 4 ? ? 101.66 108.00 -6.34 0.70 N 
6  1 "C1'" A DA 5 ? ? "O4'" A DA 5 ? ? "C4'" A DA 5 ? ? 103.39 110.10 -6.71 1.00 N 
7  1 "O4'" A DC 6 ? ? "C1'" A DC 6 ? ? N1    A DC 6 ? ? 102.26 108.00 -5.74 0.70 N 
8  1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9    A DG 7 ? ? 114.52 108.30 6.22  0.30 N 
9  1 "O4'" A DC 8 ? ? "C1'" A DC 8 ? ? N1    A DC 8 ? ? 102.82 108.00 -5.18 0.70 N 
10 1 N3    A DC 8 ? ? C4    A DC 8 ? ? C5    A DC 8 ? ? 118.62 121.90 -3.28 0.40 N 
11 1 N1    A DC 8 ? ? C2    A DC 8 ? ? O2    A DC 8 ? ? 123.67 118.90 4.77  0.60 N 
# 
_pdbx_molecule_features.prd_id    PRD_000491 
_pdbx_molecule_features.name      Echinomycin 
_pdbx_molecule_features.type      'Cyclic depsipeptide' 
_pdbx_molecule_features.class     Antibiotic 
_pdbx_molecule_features.details   
;ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE.      
 BICYCLIZATION IS ACHIEVED BY LINKING THE N- AND       
 THE C- TERMINI, AND A THIOACETAL BOND BETWEEN     
 RESIDUES 3 AND 7.                                     
 THE TWO QUINOXALINE CHROMOPHORES ARE LINKED           
 TO THE D-SERINE RESIDUES, RESIDUES 1 AND 5.
;
# 
loop_
_pdbx_molecule.instance_id 
_pdbx_molecule.prd_id 
_pdbx_molecule.asym_id 
1 PRD_000491 B 
1 PRD_000491 D 
1 PRD_000491 E 
# 
_struct_site_keywords.site_id   1 
_struct_site_keywords.text      Intercalation 
# 
loop_
_pdbx_struct_special_symmetry.id 
_pdbx_struct_special_symmetry.PDB_model_num 
_pdbx_struct_special_symmetry.auth_asym_id 
_pdbx_struct_special_symmetry.auth_comp_id 
_pdbx_struct_special_symmetry.auth_seq_id 
_pdbx_struct_special_symmetry.PDB_ins_code 
_pdbx_struct_special_symmetry.label_asym_id 
_pdbx_struct_special_symmetry.label_comp_id 
_pdbx_struct_special_symmetry.label_seq_id 
1 1 A HOH 2002 ? F HOH . 
2 1 A HOH 2013 ? F HOH . 
3 1 A HOH 2019 ? F HOH . 
4 1 A HOH 2024 ? F HOH . 
# 
_pdbx_entry_details.entry_id                 1PFE 
_pdbx_entry_details.compound_details         
;THE ECHINOMYCIN IS A BICYCLIC OCTADEPSIPEPTIDE, A MEMBER             
 OF THE QUINOXALINE CLASS OF ANTIBIOTICS.                             
 HERE, ECHINOMYCIN IS REPRESENTED BY GROUPING TOGETHER THE             
 SEQUENCE (SEQRES) AND TWO LIGANDS (HET) QUI.
;
_pdbx_entry_details.source_details           ? 
_pdbx_entry_details.nonpolymer_details       ? 
_pdbx_entry_details.sequence_details         ? 
_pdbx_entry_details.has_ligand_of_interest   ? 
# 
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  
CL  CL     CL N N 14  
DA  OP3    O  N N 15  
DA  P      P  N N 16  
DA  OP1    O  N N 17  
DA  OP2    O  N N 18  
DA  "O5'"  O  N N 19  
DA  "C5'"  C  N N 20  
DA  "C4'"  C  N R 21  
DA  "O4'"  O  N N 22  
DA  "C3'"  C  N S 23  
DA  "O3'"  O  N N 24  
DA  "C2'"  C  N N 25  
DA  "C1'"  C  N R 26  
DA  N9     N  Y N 27  
DA  C8     C  Y N 28  
DA  N7     N  Y N 29  
DA  C5     C  Y N 30  
DA  C6     C  Y N 31  
DA  N6     N  N N 32  
DA  N1     N  Y N 33  
DA  C2     C  Y N 34  
DA  N3     N  Y N 35  
DA  C4     C  Y N 36  
DA  HOP3   H  N N 37  
DA  HOP2   H  N N 38  
DA  "H5'"  H  N N 39  
DA  "H5''" H  N N 40  
DA  "H4'"  H  N N 41  
DA  "H3'"  H  N N 42  
DA  "HO3'" H  N N 43  
DA  "H2'"  H  N N 44  
DA  "H2''" H  N N 45  
DA  "H1'"  H  N N 46  
DA  H8     H  N N 47  
DA  H61    H  N N 48  
DA  H62    H  N N 49  
DA  H2     H  N N 50  
DC  OP3    O  N N 51  
DC  P      P  N N 52  
DC  OP1    O  N N 53  
DC  OP2    O  N N 54  
DC  "O5'"  O  N N 55  
DC  "C5'"  C  N N 56  
DC  "C4'"  C  N R 57  
DC  "O4'"  O  N N 58  
DC  "C3'"  C  N S 59  
DC  "O3'"  O  N N 60  
DC  "C2'"  C  N N 61  
DC  "C1'"  C  N R 62  
DC  N1     N  N N 63  
DC  C2     C  N N 64  
DC  O2     O  N N 65  
DC  N3     N  N N 66  
DC  C4     C  N N 67  
DC  N4     N  N N 68  
DC  C5     C  N N 69  
DC  C6     C  N N 70  
DC  HOP3   H  N N 71  
DC  HOP2   H  N N 72  
DC  "H5'"  H  N N 73  
DC  "H5''" H  N N 74  
DC  "H4'"  H  N N 75  
DC  "H3'"  H  N N 76  
DC  "HO3'" H  N N 77  
DC  "H2'"  H  N N 78  
DC  "H2''" H  N N 79  
DC  "H1'"  H  N N 80  
DC  H41    H  N N 81  
DC  H42    H  N N 82  
DC  H5     H  N N 83  
DC  H6     H  N N 84  
DG  OP3    O  N N 85  
DG  P      P  N N 86  
DG  OP1    O  N N 87  
DG  OP2    O  N N 88  
DG  "O5'"  O  N N 89  
DG  "C5'"  C  N N 90  
DG  "C4'"  C  N R 91  
DG  "O4'"  O  N N 92  
DG  "C3'"  C  N S 93  
DG  "O3'"  O  N N 94  
DG  "C2'"  C  N N 95  
DG  "C1'"  C  N R 96  
DG  N9     N  Y N 97  
DG  C8     C  Y N 98  
DG  N7     N  Y N 99  
DG  C5     C  Y N 100 
DG  C6     C  N N 101 
DG  O6     O  N N 102 
DG  N1     N  N N 103 
DG  C2     C  N N 104 
DG  N2     N  N N 105 
DG  N3     N  N N 106 
DG  C4     C  Y N 107 
DG  HOP3   H  N N 108 
DG  HOP2   H  N N 109 
DG  "H5'"  H  N N 110 
DG  "H5''" H  N N 111 
DG  "H4'"  H  N N 112 
DG  "H3'"  H  N N 113 
DG  "HO3'" H  N N 114 
DG  "H2'"  H  N N 115 
DG  "H2''" H  N N 116 
DG  "H1'"  H  N N 117 
DG  H8     H  N N 118 
DG  H1     H  N N 119 
DG  H21    H  N N 120 
DG  H22    H  N N 121 
DSN N      N  N N 122 
DSN CA     C  N R 123 
DSN C      C  N N 124 
DSN O      O  N N 125 
DSN OXT    O  N N 126 
DSN CB     C  N N 127 
DSN OG     O  N N 128 
DSN H      H  N N 129 
DSN H2     H  N N 130 
DSN HA     H  N N 131 
DSN HXT    H  N N 132 
DSN HB2    H  N N 133 
DSN HB3    H  N N 134 
DSN HG     H  N N 135 
DT  OP3    O  N N 136 
DT  P      P  N N 137 
DT  OP1    O  N N 138 
DT  OP2    O  N N 139 
DT  "O5'"  O  N N 140 
DT  "C5'"  C  N N 141 
DT  "C4'"  C  N R 142 
DT  "O4'"  O  N N 143 
DT  "C3'"  C  N S 144 
DT  "O3'"  O  N N 145 
DT  "C2'"  C  N N 146 
DT  "C1'"  C  N R 147 
DT  N1     N  N N 148 
DT  C2     C  N N 149 
DT  O2     O  N N 150 
DT  N3     N  N N 151 
DT  C4     C  N N 152 
DT  O4     O  N N 153 
DT  C5     C  N N 154 
DT  C7     C  N N 155 
DT  C6     C  N N 156 
DT  HOP3   H  N N 157 
DT  HOP2   H  N N 158 
DT  "H5'"  H  N N 159 
DT  "H5''" H  N N 160 
DT  "H4'"  H  N N 161 
DT  "H3'"  H  N N 162 
DT  "HO3'" H  N N 163 
DT  "H2'"  H  N N 164 
DT  "H2''" H  N N 165 
DT  "H1'"  H  N N 166 
DT  H3     H  N N 167 
DT  H71    H  N N 168 
DT  H72    H  N N 169 
DT  H73    H  N N 170 
DT  H6     H  N N 171 
HOH O      O  N N 172 
HOH H1     H  N N 173 
HOH H2     H  N N 174 
MVA N      N  N N 175 
MVA CN     C  N N 176 
MVA CA     C  N S 177 
MVA CB     C  N N 178 
MVA CG1    C  N N 179 
MVA CG2    C  N N 180 
MVA C      C  N N 181 
MVA O      O  N N 182 
MVA OXT    O  N N 183 
MVA H      H  N N 184 
MVA HN1    H  N N 185 
MVA HN2    H  N N 186 
MVA HN3    H  N N 187 
MVA HA     H  N N 188 
MVA HB     H  N N 189 
MVA HG11   H  N N 190 
MVA HG12   H  N N 191 
MVA HG13   H  N N 192 
MVA HG21   H  N N 193 
MVA HG22   H  N N 194 
MVA HG23   H  N N 195 
MVA HXT    H  N N 196 
N2C N      N  N N 197 
N2C CA     C  N R 198 
N2C CB     C  N N 199 
N2C SG     S  N N 200 
N2C CD     C  N N 201 
N2C CN     C  N N 202 
N2C C      C  N N 203 
N2C O      O  N N 204 
N2C OXT    O  N N 205 
N2C H      H  N N 206 
N2C HA     H  N N 207 
N2C HB2    H  N N 208 
N2C HB3    H  N N 209 
N2C HD1    H  N N 210 
N2C HD2    H  N N 211 
N2C HD3    H  N N 212 
N2C HN1    H  N N 213 
N2C HN2    H  N N 214 
N2C HN3    H  N N 215 
N2C HXT    H  N N 216 
NCY N      N  N N 217 
NCY CA     C  N R 218 
NCY CB     C  N N 219 
NCY SG     S  N N 220 
NCY CN     C  N N 221 
NCY C      C  N N 222 
NCY O      O  N N 223 
NCY OXT    O  N N 224 
NCY H      H  N N 225 
NCY HA     H  N N 226 
NCY HB2    H  N N 227 
NCY HB3    H  N N 228 
NCY HG     H  N N 229 
NCY HCN1   H  N N 230 
NCY HCN2   H  N N 231 
NCY HCN3   H  N N 232 
NCY HXT    H  N N 233 
QUI N1     N  Y N 234 
QUI C2     C  Y N 235 
QUI C3     C  Y N 236 
QUI N4     N  Y N 237 
QUI C5     C  Y N 238 
QUI C6     C  Y N 239 
QUI C7     C  Y N 240 
QUI C8     C  Y N 241 
QUI C9     C  Y N 242 
QUI C10    C  Y N 243 
QUI C      C  N N 244 
QUI O1     O  N N 245 
QUI O2     O  N N 246 
QUI H3     H  N N 247 
QUI H5     H  N N 248 
QUI H6     H  N N 249 
QUI H7     H  N N 250 
QUI H8     H  N N 251 
QUI HO2    H  N N 252 
# 
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  
DA  OP3   P      sing N N 13  
DA  OP3   HOP3   sing N N 14  
DA  P     OP1    doub N N 15  
DA  P     OP2    sing N N 16  
DA  P     "O5'"  sing N N 17  
DA  OP2   HOP2   sing N N 18  
DA  "O5'" "C5'"  sing N N 19  
DA  "C5'" "C4'"  sing N N 20  
DA  "C5'" "H5'"  sing N N 21  
DA  "C5'" "H5''" sing N N 22  
DA  "C4'" "O4'"  sing N N 23  
DA  "C4'" "C3'"  sing N N 24  
DA  "C4'" "H4'"  sing N N 25  
DA  "O4'" "C1'"  sing N N 26  
DA  "C3'" "O3'"  sing N N 27  
DA  "C3'" "C2'"  sing N N 28  
DA  "C3'" "H3'"  sing N N 29  
DA  "O3'" "HO3'" sing N N 30  
DA  "C2'" "C1'"  sing N N 31  
DA  "C2'" "H2'"  sing N N 32  
DA  "C2'" "H2''" sing N N 33  
DA  "C1'" N9     sing N N 34  
DA  "C1'" "H1'"  sing N N 35  
DA  N9    C8     sing Y N 36  
DA  N9    C4     sing Y N 37  
DA  C8    N7     doub Y N 38  
DA  C8    H8     sing N N 39  
DA  N7    C5     sing Y N 40  
DA  C5    C6     sing Y N 41  
DA  C5    C4     doub Y N 42  
DA  C6    N6     sing N N 43  
DA  C6    N1     doub Y N 44  
DA  N6    H61    sing N N 45  
DA  N6    H62    sing N N 46  
DA  N1    C2     sing Y N 47  
DA  C2    N3     doub Y N 48  
DA  C2    H2     sing N N 49  
DA  N3    C4     sing Y N 50  
DC  OP3   P      sing N N 51  
DC  OP3   HOP3   sing N N 52  
DC  P     OP1    doub N N 53  
DC  P     OP2    sing N N 54  
DC  P     "O5'"  sing N N 55  
DC  OP2   HOP2   sing N N 56  
DC  "O5'" "C5'"  sing N N 57  
DC  "C5'" "C4'"  sing N N 58  
DC  "C5'" "H5'"  sing N N 59  
DC  "C5'" "H5''" sing N N 60  
DC  "C4'" "O4'"  sing N N 61  
DC  "C4'" "C3'"  sing N N 62  
DC  "C4'" "H4'"  sing N N 63  
DC  "O4'" "C1'"  sing N N 64  
DC  "C3'" "O3'"  sing N N 65  
DC  "C3'" "C2'"  sing N N 66  
DC  "C3'" "H3'"  sing N N 67  
DC  "O3'" "HO3'" sing N N 68  
DC  "C2'" "C1'"  sing N N 69  
DC  "C2'" "H2'"  sing N N 70  
DC  "C2'" "H2''" sing N N 71  
DC  "C1'" N1     sing N N 72  
DC  "C1'" "H1'"  sing N N 73  
DC  N1    C2     sing N N 74  
DC  N1    C6     sing N N 75  
DC  C2    O2     doub N N 76  
DC  C2    N3     sing N N 77  
DC  N3    C4     doub N N 78  
DC  C4    N4     sing N N 79  
DC  C4    C5     sing N N 80  
DC  N4    H41    sing N N 81  
DC  N4    H42    sing N N 82  
DC  C5    C6     doub N N 83  
DC  C5    H5     sing N N 84  
DC  C6    H6     sing N N 85  
DG  OP3   P      sing N N 86  
DG  OP3   HOP3   sing N N 87  
DG  P     OP1    doub N N 88  
DG  P     OP2    sing N N 89  
DG  P     "O5'"  sing N N 90  
DG  OP2   HOP2   sing N N 91  
DG  "O5'" "C5'"  sing N N 92  
DG  "C5'" "C4'"  sing N N 93  
DG  "C5'" "H5'"  sing N N 94  
DG  "C5'" "H5''" sing N N 95  
DG  "C4'" "O4'"  sing N N 96  
DG  "C4'" "C3'"  sing N N 97  
DG  "C4'" "H4'"  sing N N 98  
DG  "O4'" "C1'"  sing N N 99  
DG  "C3'" "O3'"  sing N N 100 
DG  "C3'" "C2'"  sing N N 101 
DG  "C3'" "H3'"  sing N N 102 
DG  "O3'" "HO3'" sing N N 103 
DG  "C2'" "C1'"  sing N N 104 
DG  "C2'" "H2'"  sing N N 105 
DG  "C2'" "H2''" sing N N 106 
DG  "C1'" N9     sing N N 107 
DG  "C1'" "H1'"  sing N N 108 
DG  N9    C8     sing Y N 109 
DG  N9    C4     sing Y N 110 
DG  C8    N7     doub Y N 111 
DG  C8    H8     sing N N 112 
DG  N7    C5     sing Y N 113 
DG  C5    C6     sing N N 114 
DG  C5    C4     doub Y N 115 
DG  C6    O6     doub N N 116 
DG  C6    N1     sing N N 117 
DG  N1    C2     sing N N 118 
DG  N1    H1     sing N N 119 
DG  C2    N2     sing N N 120 
DG  C2    N3     doub N N 121 
DG  N2    H21    sing N N 122 
DG  N2    H22    sing N N 123 
DG  N3    C4     sing N N 124 
DSN N     CA     sing N N 125 
DSN N     H      sing N N 126 
DSN N     H2     sing N N 127 
DSN CA    C      sing N N 128 
DSN CA    CB     sing N N 129 
DSN CA    HA     sing N N 130 
DSN C     O      doub N N 131 
DSN C     OXT    sing N N 132 
DSN OXT   HXT    sing N N 133 
DSN CB    OG     sing N N 134 
DSN CB    HB2    sing N N 135 
DSN CB    HB3    sing N N 136 
DSN OG    HG     sing N N 137 
DT  OP3   P      sing N N 138 
DT  OP3   HOP3   sing N N 139 
DT  P     OP1    doub N N 140 
DT  P     OP2    sing N N 141 
DT  P     "O5'"  sing N N 142 
DT  OP2   HOP2   sing N N 143 
DT  "O5'" "C5'"  sing N N 144 
DT  "C5'" "C4'"  sing N N 145 
DT  "C5'" "H5'"  sing N N 146 
DT  "C5'" "H5''" sing N N 147 
DT  "C4'" "O4'"  sing N N 148 
DT  "C4'" "C3'"  sing N N 149 
DT  "C4'" "H4'"  sing N N 150 
DT  "O4'" "C1'"  sing N N 151 
DT  "C3'" "O3'"  sing N N 152 
DT  "C3'" "C2'"  sing N N 153 
DT  "C3'" "H3'"  sing N N 154 
DT  "O3'" "HO3'" sing N N 155 
DT  "C2'" "C1'"  sing N N 156 
DT  "C2'" "H2'"  sing N N 157 
DT  "C2'" "H2''" sing N N 158 
DT  "C1'" N1     sing N N 159 
DT  "C1'" "H1'"  sing N N 160 
DT  N1    C2     sing N N 161 
DT  N1    C6     sing N N 162 
DT  C2    O2     doub N N 163 
DT  C2    N3     sing N N 164 
DT  N3    C4     sing N N 165 
DT  N3    H3     sing N N 166 
DT  C4    O4     doub N N 167 
DT  C4    C5     sing N N 168 
DT  C5    C7     sing N N 169 
DT  C5    C6     doub N N 170 
DT  C7    H71    sing N N 171 
DT  C7    H72    sing N N 172 
DT  C7    H73    sing N N 173 
DT  C6    H6     sing N N 174 
HOH O     H1     sing N N 175 
HOH O     H2     sing N N 176 
MVA N     CN     sing N N 177 
MVA N     CA     sing N N 178 
MVA N     H      sing N N 179 
MVA CN    HN1    sing N N 180 
MVA CN    HN2    sing N N 181 
MVA CN    HN3    sing N N 182 
MVA CA    CB     sing N N 183 
MVA CA    C      sing N N 184 
MVA CA    HA     sing N N 185 
MVA CB    CG1    sing N N 186 
MVA CB    CG2    sing N N 187 
MVA CB    HB     sing N N 188 
MVA CG1   HG11   sing N N 189 
MVA CG1   HG12   sing N N 190 
MVA CG1   HG13   sing N N 191 
MVA CG2   HG21   sing N N 192 
MVA CG2   HG22   sing N N 193 
MVA CG2   HG23   sing N N 194 
MVA C     O      doub N N 195 
MVA C     OXT    sing N N 196 
MVA OXT   HXT    sing N N 197 
N2C N     CA     sing N N 198 
N2C N     CN     sing N N 199 
N2C N     H      sing N N 200 
N2C CA    CB     sing N N 201 
N2C CA    C      sing N N 202 
N2C CA    HA     sing N N 203 
N2C CB    SG     sing N N 204 
N2C CB    HB2    sing N N 205 
N2C CB    HB3    sing N N 206 
N2C SG    CD     sing N N 207 
N2C CD    HD1    sing N N 208 
N2C CD    HD2    sing N N 209 
N2C CD    HD3    sing N N 210 
N2C CN    HN1    sing N N 211 
N2C CN    HN2    sing N N 212 
N2C CN    HN3    sing N N 213 
N2C C     O      doub N N 214 
N2C C     OXT    sing N N 215 
N2C OXT   HXT    sing N N 216 
NCY N     CA     sing N N 217 
NCY N     CN     sing N N 218 
NCY N     H      sing N N 219 
NCY CA    CB     sing N N 220 
NCY CA    C      sing N N 221 
NCY CA    HA     sing N N 222 
NCY CB    SG     sing N N 223 
NCY CB    HB2    sing N N 224 
NCY CB    HB3    sing N N 225 
NCY SG    HG     sing N N 226 
NCY CN    HCN1   sing N N 227 
NCY CN    HCN2   sing N N 228 
NCY CN    HCN3   sing N N 229 
NCY C     O      doub N N 230 
NCY C     OXT    sing N N 231 
NCY OXT   HXT    sing N N 232 
QUI N1    C2     doub Y N 233 
QUI N1    C9     sing Y N 234 
QUI C2    C3     sing Y N 235 
QUI C2    C      sing N N 236 
QUI C3    N4     doub Y N 237 
QUI C3    H3     sing N N 238 
QUI N4    C10    sing Y N 239 
QUI C5    C6     doub Y N 240 
QUI C5    C10    sing Y N 241 
QUI C5    H5     sing N N 242 
QUI C6    C7     sing Y N 243 
QUI C6    H6     sing N N 244 
QUI C7    C8     doub Y N 245 
QUI C7    H7     sing N N 246 
QUI C8    C9     sing Y N 247 
QUI C8    H8     sing N N 248 
QUI C9    C10    doub Y N 249 
QUI C     O1     doub N N 250 
QUI C     O2     sing N N 251 
QUI O2    HO2    sing N N 252 
# 
_ndb_struct_conf_na.entry_id   1PFE 
_ndb_struct_conf_na.feature    'double helix' 
# 
loop_
_ndb_struct_na_base_pair.model_number 
_ndb_struct_na_base_pair.i_label_asym_id 
_ndb_struct_na_base_pair.i_label_comp_id 
_ndb_struct_na_base_pair.i_label_seq_id 
_ndb_struct_na_base_pair.i_symmetry 
_ndb_struct_na_base_pair.j_label_asym_id 
_ndb_struct_na_base_pair.j_label_comp_id 
_ndb_struct_na_base_pair.j_label_seq_id 
_ndb_struct_na_base_pair.j_symmetry 
_ndb_struct_na_base_pair.shear 
_ndb_struct_na_base_pair.stretch 
_ndb_struct_na_base_pair.stagger 
_ndb_struct_na_base_pair.buckle 
_ndb_struct_na_base_pair.propeller 
_ndb_struct_na_base_pair.opening 
_ndb_struct_na_base_pair.pair_number 
_ndb_struct_na_base_pair.pair_name 
_ndb_struct_na_base_pair.i_auth_asym_id 
_ndb_struct_na_base_pair.i_auth_seq_id 
_ndb_struct_na_base_pair.i_PDB_ins_code 
_ndb_struct_na_base_pair.j_auth_asym_id 
_ndb_struct_na_base_pair.j_auth_seq_id 
_ndb_struct_na_base_pair.j_PDB_ins_code 
_ndb_struct_na_base_pair.hbond_type_28 
_ndb_struct_na_base_pair.hbond_type_12 
1 A DG 1 1_555 A DC 8 9_555 0.445  -3.489 -0.388 4.097   -4.685 66.359  1 A_DG1:DC8_A A 1 ? A 8 ? ?  ? 
1 A DG 1 1_555 A DC 8 1_555 0.445  -3.489 -0.388 4.097   -4.685 66.359  2 A_DG1:DC8_A A 1 ? A 8 ? ?  ? 
1 A DC 2 1_555 A DG 7 9_555 0.376  -0.127 0.312  -23.917 6.552  -1.666  3 A_DC2:DG7_A A 2 ? A 7 ? 19 1 
1 A DG 3 1_555 A DC 6 9_555 -0.350 -0.080 0.358  23.129  7.146  -0.062  4 A_DG3:DC6_A A 3 ? A 6 ? 19 1 
1 A DT 4 1_555 A DA 5 9_555 -0.567 3.640  0.189  0.747   9.053  -67.135 5 A_DT4:DA5_A A 4 ? A 5 ? 23 3 
1 A DA 5 1_555 A DT 4 9_555 0.567  -3.640 -0.189 -0.747  -9.053 67.135  6 A_DA5:DT4_A A 5 ? A 4 ? 23 3 
1 A DC 6 1_555 A DG 3 9_555 0.350  -0.080 0.358  -23.129 7.146  -0.062  7 A_DC6:DG3_A A 6 ? A 3 ? 19 1 
1 A DG 7 1_555 A DC 2 9_555 -0.376 -0.127 0.312  23.917  6.552  -1.666  8 A_DG7:DC2_A A 7 ? A 2 ? 19 1 
# 
loop_
_ndb_struct_na_base_pair_step.model_number 
_ndb_struct_na_base_pair_step.i_label_asym_id_1 
_ndb_struct_na_base_pair_step.i_label_comp_id_1 
_ndb_struct_na_base_pair_step.i_label_seq_id_1 
_ndb_struct_na_base_pair_step.i_symmetry_1 
_ndb_struct_na_base_pair_step.j_label_asym_id_1 
_ndb_struct_na_base_pair_step.j_label_comp_id_1 
_ndb_struct_na_base_pair_step.j_label_seq_id_1 
_ndb_struct_na_base_pair_step.j_symmetry_1 
_ndb_struct_na_base_pair_step.i_label_asym_id_2 
_ndb_struct_na_base_pair_step.i_label_comp_id_2 
_ndb_struct_na_base_pair_step.i_label_seq_id_2 
_ndb_struct_na_base_pair_step.i_symmetry_2 
_ndb_struct_na_base_pair_step.j_label_asym_id_2 
_ndb_struct_na_base_pair_step.j_label_comp_id_2 
_ndb_struct_na_base_pair_step.j_label_seq_id_2 
_ndb_struct_na_base_pair_step.j_symmetry_2 
_ndb_struct_na_base_pair_step.shift 
_ndb_struct_na_base_pair_step.slide 
_ndb_struct_na_base_pair_step.rise 
_ndb_struct_na_base_pair_step.tilt 
_ndb_struct_na_base_pair_step.roll 
_ndb_struct_na_base_pair_step.twist 
_ndb_struct_na_base_pair_step.x_displacement 
_ndb_struct_na_base_pair_step.y_displacement 
_ndb_struct_na_base_pair_step.helical_rise 
_ndb_struct_na_base_pair_step.inclination 
_ndb_struct_na_base_pair_step.tip 
_ndb_struct_na_base_pair_step.helical_twist 
_ndb_struct_na_base_pair_step.step_number 
_ndb_struct_na_base_pair_step.step_name 
_ndb_struct_na_base_pair_step.i_auth_asym_id_1 
_ndb_struct_na_base_pair_step.i_auth_seq_id_1 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.j_auth_asym_id_1 
_ndb_struct_na_base_pair_step.j_auth_seq_id_1 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.i_auth_asym_id_2 
_ndb_struct_na_base_pair_step.i_auth_seq_id_2 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_2 
_ndb_struct_na_base_pair_step.j_auth_asym_id_2 
_ndb_struct_na_base_pair_step.j_auth_seq_id_2 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_2 
1 A DC 2 1_555 A DG 7 9_555 A DG 3 1_555 A DC 6 9_555 0.152  0.809  2.432  -1.150   2.248  -4.199   -21.547 -4.403 1.749  -27.621 
-14.134 -4.899   1 AA_DC2DG3:DC6DG7_AA A 2 ? A 7 ? A 3 ? A 6 ? 
1 A DG 3 1_555 A DC 6 9_555 A DT 4 1_555 A DA 5 9_555 0.307  -0.059 7.183  -5.488   8.186  65.388   -0.779  -0.767 7.090  7.533   
5.050   66.045   2 AA_DG3DT4:DA5DC6_AA A 3 ? A 6 ? A 4 ? A 5 ? 
1 A DT 4 1_555 A DA 5 9_555 A DA 5 1_555 A DT 4 9_555 2.940  -5.003 0.000  -151.053 78.005 180.000  -2.501  -1.470 0.000  39.003  
75.527  180.000  3 AA_DT4DA5:DT4DA5_AA A 4 ? A 5 ? A 5 ? A 4 ? 
1 A DA 5 1_555 A DT 4 9_555 A DC 6 1_555 A DG 3 9_555 3.695  6.164  -0.222 -143.188 91.904 -112.324 -3.042  1.917  -0.307 -46.401 
-72.294 -174.517 4 AA_DA5DC6:DG3DT4_AA A 5 ? A 4 ? A 6 ? A 3 ? 
1 A DC 6 1_555 A DG 3 9_555 A DG 7 1_555 A DC 2 9_555 -0.152 0.809  2.432  1.150    2.248  -4.199   -21.547 4.403  1.749  -27.621 
14.134  -4.899   5 AA_DC6DG7:DC2DG3_AA A 6 ? A 3 ? A 7 ? A 2 ? 
# 
_pdbx_initial_refinement_model.accession_code   ? 
_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      Other 
_pdbx_initial_refinement_model.details          'TROSTIN A - (GCGTACGC)2 COMPLEX' 
# 
_atom_sites.entry_id                    1PFE 
_atom_sites.fract_transf_matrix[1][1]   0.025397 
_atom_sites.fract_transf_matrix[1][2]   0.014663 
_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]   0.029326 
_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]   0.012542 
_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  
CL 
N  
O  
P  
S  
# 
loop_