data_1UNM
#
_entry.id 1UNM
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.397
_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 1UNM pdb_00001unm 10.2210/pdb1unm/pdb
PDBE EBI-13488 ? ?
WWPDB D_1290013488 ? ?
#
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 2004-09-24
2 'Structure model' 1 1 2011-07-13
3 'Structure model' 1 2 2011-07-20
4 'Structure model' 1 3 2012-11-30
5 'Structure model' 1 4 2019-05-08
6 'Structure model' 1 5 2019-05-22
7 'Structure model' 1 6 2019-07-24
8 'Structure model' 1 7 2019-10-23
9 'Structure model' 2 0 2023-11-15
10 'Structure model' 3 0 2024-07-10
11 'Structure model' 3 1 2024-10-23
#
_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' 'Atomic model'
2 2 'Structure model' 'Database references'
3 2 'Structure model' 'Derived calculations'
4 2 'Structure model' 'Structure summary'
5 2 'Structure model' 'Version format compliance'
6 3 'Structure model' Other
7 3 'Structure model' 'Structure summary'
8 4 'Structure model' Other
9 5 'Structure model' Advisory
10 5 'Structure model' 'Data collection'
11 5 'Structure model' 'Derived calculations'
12 5 'Structure model' 'Experimental preparation'
13 5 'Structure model' Other
14 6 'Structure model' 'Data collection'
15 6 'Structure model' 'Refinement description'
16 7 'Structure model' 'Data collection'
17 8 'Structure model' 'Data collection'
18 8 'Structure model' 'Database references'
19 8 'Structure model' Other
20 9 'Structure model' 'Atomic model'
21 9 'Structure model' 'Data collection'
22 9 'Structure model' 'Database references'
23 9 'Structure model' 'Derived calculations'
24 10 'Structure model' 'Data collection'
25 10 'Structure model' 'Derived calculations'
26 10 'Structure model' 'Non-polymer description'
27 10 'Structure model' 'Source and taxonomy'
28 10 'Structure model' 'Structure summary'
29 11 'Structure model' 'Structure summary'
#
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 5 'Structure model' database_PDB_rev
2 5 'Structure model' database_PDB_rev_record
3 5 'Structure model' exptl_crystal_grow
4 5 'Structure model' pdbx_database_proc
5 5 'Structure model' pdbx_database_status
6 5 'Structure model' pdbx_seq_map_depositor_info
7 5 'Structure model' pdbx_unobs_or_zero_occ_atoms
8 5 'Structure model' pdbx_validate_polymer_linkage
9 5 'Structure model' struct_conn
10 6 'Structure model' pdbx_seq_map_depositor_info
11 6 'Structure model' refine
12 7 'Structure model' diffrn_source
13 8 'Structure model' pdbx_database_status
14 8 'Structure model' struct_ref_seq_dif
15 9 'Structure model' atom_site
16 9 'Structure model' chem_comp_atom
17 9 'Structure model' chem_comp_bond
18 9 'Structure model' database_2
19 9 'Structure model' struct_conn
20 10 'Structure model' chem_comp
21 10 'Structure model' chem_comp_atom
22 10 'Structure model' chem_comp_bond
23 10 'Structure model' entity
24 10 'Structure model' pdbx_entity_src_syn
25 10 'Structure model' struct_conn
26 11 'Structure model' pdbx_entry_details
27 11 'Structure model' pdbx_modification_feature
#
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 5 'Structure model' '_exptl_crystal_grow.method'
2 5 'Structure model' '_pdbx_database_status.recvd_author_approval'
3 5 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code_mod'
4 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
5 6 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code_mod'
6 6 'Structure model' '_refine.pdbx_ls_cross_valid_method'
7 7 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
8 8 'Structure model' '_pdbx_database_status.status_code_sf'
9 8 'Structure model' '_struct_ref_seq_dif.details'
10 9 'Structure model' '_atom_site.auth_atom_id'
11 9 'Structure model' '_atom_site.label_atom_id'
12 9 'Structure model' '_database_2.pdbx_DOI'
13 9 'Structure model' '_database_2.pdbx_database_accession'
14 9 'Structure model' '_struct_conn.pdbx_dist_value'
15 9 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
16 9 'Structure model' '_struct_conn.ptnr1_label_atom_id'
17 9 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
18 9 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
19 9 'Structure model' '_struct_conn.ptnr2_label_atom_id'
20 9 'Structure model' '_struct_conn.ptnr2_label_comp_id'
21 9 'Structure model' '_struct_conn.ptnr2_label_seq_id'
22 10 'Structure model' '_chem_comp.formula'
23 10 'Structure model' '_chem_comp.formula_weight'
24 10 'Structure model' '_entity.formula_weight'
25 10 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
26 11 'Structure model' '_pdbx_entry_details.has_protein_modification'
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 1UNM
_pdbx_database_status.deposit_site PDBE
_pdbx_database_status.process_site PDBE
_pdbx_database_status.SG_entry .
_pdbx_database_status.recvd_initial_deposition_date 2003-09-11
_pdbx_database_status.pdb_format_compatible Y
_pdbx_database_status.status_code_sf REL
_pdbx_database_status.status_code_mr ?
_pdbx_database_status.status_code_cs ?
_pdbx_database_status.methods_development_category ?
_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 1A7Z unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN Z3'
PDB 209D unspecified 'CRYSTAL STRUCTURE OF N8-ACTINOMYCIN D COMPLEXED WITH D(GAAGCTTC)2'
PDB 1I3W unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CGATCGATCG)2'
PDB 1A7Y unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN D'
PDB 1FJA unspecified 'SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (AAGCGCTT)2'
PDB 173D unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2'
PDB 2D55 unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2'
PDB 1DSC unspecified 'SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2'
PDB 1L1V unspecified 'SOLUTION STRUCTURE OF ACTNIOMYCIN D COMPLEXED WITH MISMATCHED DNA (GTCACCGAC)'
PDB 316D unspecified 'CRYSTAL STRUCTURE OF F8-ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2'
PDB 1DSD unspecified 'SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GATGCTTC)2'
PDB 1MNV unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (ATGCTGCAT)2'
PDB 1UNJ unspecified 'CRYSTAL STRUCTURE OF 7-AMINO-ACTINOMYCIN D COMPLEXED WITH A NON-COMPLEMENTARY DNA (TTAGT)2'
PDB 1OVF unspecified 'SOLUTIOM STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CCGTTTTGTGG)2'
PDB 1QFI unspecified 'CRYSTAL STRUCTURE OF ACTINOMYCIN X2'
#
loop_
_audit_author.name
_audit_author.pdbx_ordinal
'Alexopoulos, E.C.' 1
'Klement, R.' 2
'Jares-Erijman, E.A.' 3
'Uson, I.' 4
'Jovin, T.M.' 5
'Sheldrick, G.M.' 6
#
_citation.id primary
_citation.title
'Crystal and Solution Structures of 7-Amino-Actinomycin D Complexes with D(Ttagbrut), D(Ttagtt) and D(Tttagttt)'
_citation.journal_abbrev 'Acta Crystallogr.,Sect.D'
_citation.journal_volume 61
_citation.page_first 407
_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 15805595
_citation.pdbx_database_id_DOI 10.1107/S090744490500082X
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Alexopoulos, E.C.' 1 ?
primary 'Jares-Erijman, E.A.' 2 ?
primary 'Jovin, T.M.' 3 ?
primary 'Klement, R.' 4 ?
primary 'Machinek, R.' 5 ?
primary 'Sheldrick, G.M.' 6 ?
primary 'Uson, I.' 7 ?
#
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(*TP*TP*AP*GP*BRU*TP)-3'" 1879.096 4 ? ? ? ?
2 polymer syn '7-AMINOACTINOMYCIN D' 1306.461 2 ? ? ? ?
3 water nat water 18.015 13 ? ? ? ?
#
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 yes '(DT)(DT)(DA)(DG)(BRU)(DT)' TTAGUT A,B,C,D ?
2 'polypeptide(L)' no yes 'T(DVA)P(SAR)(MVA)(PX1)T(DVA)P(SAR)(MVA)' TVPGVXTVPGV E,F ?
#
_pdbx_entity_nonpoly.entity_id 3
_pdbx_entity_nonpoly.name water
_pdbx_entity_nonpoly.comp_id HOH
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 DT n
1 2 DT n
1 3 DA n
1 4 DG n
1 5 BRU n
1 6 DT n
2 1 THR n
2 2 DVA n
2 3 PRO n
2 4 SAR n
2 5 MVA n
2 6 PX1 n
2 7 THR n
2 8 DVA n
2 9 PRO n
2 10 SAR n
2 11 MVA n
#
loop_
_pdbx_entity_src_syn.entity_id
_pdbx_entity_src_syn.pdbx_src_id
_pdbx_entity_src_syn.pdbx_alt_source_flag
_pdbx_entity_src_syn.pdbx_beg_seq_num
_pdbx_entity_src_syn.pdbx_end_seq_num
_pdbx_entity_src_syn.organism_scientific
_pdbx_entity_src_syn.organism_common_name
_pdbx_entity_src_syn.ncbi_taxonomy_id
_pdbx_entity_src_syn.details
1 1 sample ? ? 'synthetic construct' ? 32630 ?
2 1 sample ? ? 'STREPTOMYCES ANTIBIOTICUS' ? 1890 ?
#
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
BRU 'DNA linking' n "5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE"
? 'C9 H12 Br N2 O8 P' 387.078
DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE"
? 'C10 H14 N5 O6 P' 331.222
DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE"
? 'C10 H14 N5 O7 P' 347.221
DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE"
? 'C10 H15 N2 O8 P' 322.208
DVA 'D-peptide linking' . D-VALINE
? 'C5 H11 N O2' 117.146
HOH non-polymer . WATER
? 'H2 O' 18.015
MVA 'L-peptide linking' n N-METHYLVALINE
? 'C6 H13 N O2' 131.173
PRO 'L-peptide linking' y PROLINE
? 'C5 H9 N O2' 115.130
PX1 non-polymer . '(1Z)-7-AMINO-1-(HYDROXYMETHYLENE)-2-IMINO-4,6-DIMETHYL-3-OXO-2,3-DIHYDRO-1H-PHENOXAZINE-9-CARBALDEHYDE'
? 'C16 H13 N3 O6' 343.291
PXZ non-polymer . 2-AMINO-1,9-DICARBONYL-4,6-DIMETHYL-10-DEHYDRO-PHENOXAZIN-3-ONE
PHENOXAZINE 'C16 H12 N2 O6' 328.276
SAR 'peptide linking' n SARCOSINE
? 'C3 H7 N O2' 89.093
THR 'L-peptide linking' y THREONINE
? 'C4 H9 N O3' 119.119
#
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 DT 1 1 1 DT DT A . n
A 1 2 DT 2 2 2 DT DT A . n
A 1 3 DA 3 3 3 DA DA A . n
A 1 4 DG 4 4 4 DG DG A . n
A 1 5 BRU 5 5 5 BRU BRU A . n
A 1 6 DT 6 6 6 DT DT A . n
B 1 1 DT 1 1 ? ? ? B . n
B 1 2 DT 2 2 2 DT DT B . n
B 1 3 DA 3 3 3 DA DA B . n
B 1 4 DG 4 4 4 DG DG B . n
B 1 5 BRU 5 5 5 BRU BRU B . n
B 1 6 DT 6 6 6 DT DT B . n
C 1 1 DT 1 1 ? ? ? C . n
C 1 2 DT 2 2 2 DT DT C . n
C 1 3 DA 3 3 3 DA DA C . n
C 1 4 DG 4 4 4 DG DG C . n
C 1 5 BRU 5 5 5 BRU BRU C . n
C 1 6 DT 6 6 6 DT DT C . n
D 1 1 DT 1 1 ? ? ? D . n
D 1 2 DT 2 2 2 DT DT D . n
D 1 3 DA 3 3 3 DA DA D . n
D 1 4 DG 4 4 4 DG DG D . n
D 1 5 BRU 5 5 5 BRU BRU D . n
D 1 6 DT 6 6 6 DT DT D . n
E 2 1 THR 1 1 1 THR THR E . n
E 2 2 DVA 2 2 2 DVA DVA E . n
E 2 3 PRO 3 3 3 PRO PRO E . n
E 2 4 SAR 4 4 4 SAR SAR E . n
E 2 5 MVA 5 5 5 MVA MVA E . n
E 2 6 PX1 6 6 6 PX1 PX1 E . n
E 2 7 THR 7 7 7 THR THR E . n
E 2 8 DVA 8 8 8 DVA DVA E . n
E 2 9 PRO 9 9 9 PRO PRO E . n
E 2 10 SAR 10 10 10 SAR SAR E . n
E 2 11 MVA 11 11 11 MVA MVA E . n
F 2 1 THR 1 1 1 THR THR F . n
F 2 2 DVA 2 2 2 DVA DVA F . n
F 2 3 PRO 3 3 3 PRO PRO F . n
F 2 4 SAR 4 4 4 SAR SAR F . n
F 2 5 MVA 5 5 5 MVA MVA F . n
F 2 6 PX1 6 6 6 PX1 PX1 F . n
F 2 7 THR 7 7 7 THR THR F . n
F 2 8 DVA 8 8 8 DVA DVA F . n
F 2 9 PRO 9 9 9 PRO PRO F . n
F 2 10 SAR 10 10 10 SAR SAR F . n
F 2 11 MVA 11 11 11 MVA MVA F . 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
G 3 HOH 1 2001 2001 HOH HOH A .
G 3 HOH 2 2002 2002 HOH HOH A .
G 3 HOH 3 2003 2003 HOH HOH A .
G 3 HOH 4 2004 2004 HOH HOH A .
H 3 HOH 1 2001 2001 HOH HOH B .
H 3 HOH 2 2002 2002 HOH HOH B .
I 3 HOH 1 2001 2001 HOH HOH C .
I 3 HOH 2 2002 2002 HOH HOH C .
I 3 HOH 3 2003 2003 HOH HOH C .
I 3 HOH 4 2004 2004 HOH HOH C .
I 3 HOH 5 2005 2005 HOH HOH C .
J 3 HOH 1 2001 2001 HOH HOH D .
J 3 HOH 2 2002 2002 HOH HOH D .
#
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 A DT 1 ? "O5'" ? A DT 1 "O5'"
2 1 Y 1 A DT 1 ? "C5'" ? A DT 1 "C5'"
3 1 Y 1 B DT 2 ? P ? B DT 2 P
4 1 Y 1 B DT 2 ? OP1 ? B DT 2 OP1
5 1 Y 1 B DT 2 ? OP2 ? B DT 2 OP2
6 1 Y 1 B DT 2 ? "O5'" ? B DT 2 "O5'"
7 1 Y 1 B DT 2 ? "C5'" ? B DT 2 "C5'"
8 1 Y 1 B DT 2 ? "C4'" ? B DT 2 "C4'"
9 1 Y 1 B DT 2 ? "O4'" ? B DT 2 "O4'"
10 1 Y 1 B DT 2 ? "C3'" ? B DT 2 "C3'"
11 1 Y 1 B DT 2 ? "C2'" ? B DT 2 "C2'"
12 1 Y 1 B DT 2 ? "C1'" ? B DT 2 "C1'"
13 1 Y 1 B DT 2 ? N1 ? B DT 2 N1
14 1 Y 1 B DT 2 ? C2 ? B DT 2 C2
15 1 Y 1 B DT 2 ? O2 ? B DT 2 O2
16 1 Y 1 B DT 2 ? N3 ? B DT 2 N3
17 1 Y 1 B DT 2 ? C4 ? B DT 2 C4
18 1 Y 1 B DT 2 ? O4 ? B DT 2 O4
19 1 Y 1 B DT 2 ? C5 ? B DT 2 C5
20 1 Y 1 B DT 2 ? C7 ? B DT 2 C7
21 1 Y 1 B DT 2 ? C6 ? B DT 2 C6
22 1 Y 1 B DT 6 ? "O3'" ? B DT 6 "O3'"
#
loop_
_software.name
_software.classification
_software.version
_software.citation_id
_software.pdbx_ordinal
SHELXL-97 refinement . ? 1
DENZO 'data reduction' . ? 2
SCALEPACK 'data scaling' . ? 3
SHELXD phasing . ? 4
#
_cell.entry_id 1UNM
_cell.length_a 51.586
_cell.length_b 70.975
_cell.length_c 39.453
_cell.angle_alpha 90.00
_cell.angle_beta 90.00
_cell.angle_gamma 90.00
_cell.Z_PDB 32
_cell.pdbx_unique_axis ?
#
_symmetry.entry_id 1UNM
_symmetry.space_group_name_H-M 'C 2 2 21'
_symmetry.pdbx_full_space_group_name_H-M ?
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 20
#
_exptl.entry_id 1UNM
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 1.79
_exptl_crystal.density_percent_sol 45
_exptl_crystal.description ?
#
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP'
_exptl_crystal_grow.temp ?
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.pH 5.60
_exptl_crystal_grow.pdbx_pH_range ?
_exptl_crystal_grow.pdbx_details '(NH4)2SO4, NAK TART, NA CIT, PH 5.6, HANGING DROP'
#
_diffrn.id 1
_diffrn.ambient_temp 100.0
_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 2002-06-15
_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 ?
_diffrn_radiation.pdbx_diffrn_protocol MAD
_diffrn_radiation.pdbx_scattering_type x-ray
#
loop_
_diffrn_radiation_wavelength.id
_diffrn_radiation_wavelength.wavelength
_diffrn_radiation_wavelength.wt
1 1.5418 1.0
2 0.8110 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 ?
_diffrn_source.pdbx_wavelength_list 1.5418,0.8110
#
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.entry_id 1UNM
_reflns.observed_criterion_sigma_I ?
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 20.000
_reflns.d_resolution_high 2.000
_reflns.number_obs 10296
_reflns.number_all ?
_reflns.percent_possible_obs 99.6
_reflns.pdbx_Rmerge_I_obs 0.03200
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI 11.8700
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy 1.830
#
_reflns_shell.pdbx_diffrn_id 1
_reflns_shell.pdbx_ordinal 1
_reflns_shell.d_res_high 2.00
_reflns_shell.d_res_low 2.10
_reflns_shell.percent_possible_all 98.8
_reflns_shell.Rmerge_I_obs 0.08960
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs 8.710
_reflns_shell.pdbx_redundancy 1.86
#
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.entry_id 1UNM
_refine.pdbx_diffrn_id 1
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.ls_number_reflns_obs ?
_refine.ls_number_reflns_all 4870
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F 0.0
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.ls_d_res_low 20
_refine.ls_d_res_high 2.00
_refine.ls_percent_reflns_obs 99.6
_refine.ls_R_factor_obs 0.2431
_refine.ls_R_factor_all ?
_refine.ls_R_factor_R_work ?
_refine.ls_R_factor_R_free 0.2809
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_percent_reflns_R_free 5
_refine.ls_number_reflns_R_free 257
_refine.ls_number_parameters 2356
_refine.ls_number_restraints 2493
_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-VALUE'
_refine.details ?
_refine.pdbx_starting_model ?
_refine.pdbx_method_to_determine_struct MAD
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_stereochemistry_target_values 'ENGH AND HUBER'
_refine.pdbx_stereochem_target_val_spec_case ?
_refine.pdbx_R_Free_selection_details 'IN 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_analyze.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_analyze.entry_id 1UNM
_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 0
_refine_analyze.occupancy_sum_hydrogen 0
_refine_analyze.occupancy_sum_non_hydrogen 583.29
#
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.cycle_id LAST
_refine_hist.pdbx_number_atoms_protein 182
_refine_hist.pdbx_number_atoms_nucleic_acid 390
_refine_hist.pdbx_number_atoms_ligand 0
_refine_hist.number_atoms_solvent 13
_refine_hist.number_atoms_total 585
_refine_hist.d_res_high 2.00
_refine_hist.d_res_low 20
#
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 0.006 ? ? ? 'X-RAY DIFFRACTION' ?
s_angle_d 0.019 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ?
s_from_restr_planes 0.205 ? ? ? 'X-RAY DIFFRACTION' ?
s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ?
s_non_zero_chiral_vol 0.004 ? ? ? 'X-RAY DIFFRACTION' ?
s_anti_bump_dis_restr 0.005 ? ? ? 'X-RAY DIFFRACTION' ?
s_rigid_bond_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_adp_cmpnt 0.082 ? ? ? 'X-RAY DIFFRACTION' ?
s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ?
#
_pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_pdbx_refine.entry_id 1UNM
_pdbx_refine.R_factor_all_no_cutoff ?
_pdbx_refine.R_factor_obs_no_cutoff 0.2431
_pdbx_refine.free_R_factor_no_cutoff 0.2809
_pdbx_refine.free_R_error_no_cutoff ?
_pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5
_pdbx_refine.free_R_val_test_set_ct_no_cutoff 257
_pdbx_refine.R_factor_all_4sig_cutoff ?
_pdbx_refine.R_factor_obs_4sig_cutoff 0.2370
_pdbx_refine.free_R_factor_4sig_cutoff 0.2744
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.4
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 245
_pdbx_refine.number_reflns_obs_4sig_cutoff 4558
#
_database_PDB_matrix.entry_id 1UNM
_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 1UNM
_struct.title 'Crystal structure of 7-Aminoactinomycin D with non-complementary DNA'
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 1UNM
_struct_keywords.pdbx_keywords DNA/ANTIBIOTIC
_struct_keywords.text
;ACTINOMYCIN D, ACTINOMYCIN, ANTIBIOTIC, ANTI CANCER, CHROMOPHORE, DEPSIPEPTIDE, FLUORESCENT AGENT, ANTI TUMOR, NON-COMPLEMENTARY DNA, HOOGSTEN BASE-PAIR, 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 1 ?
C N N 1 ?
D N N 1 ?
E N N 2 ?
F N N 2 ?
G N N 3 ?
H N N 3 ?
I N N 3 ?
J N N 3 ?
#
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 1UNM 1 ? ? 1UNM ?
2 NOR NOR00228 2 ? ? NOR00228 ?
#
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 1UNM A 1 ? 6 ? 1UNM 1 ? 6 ? 1 6
2 1 1UNM B 1 ? 6 ? 1UNM 1 ? 6 ? 1 6
3 1 1UNM C 1 ? 6 ? 1UNM 1 ? 6 ? 1 6
4 1 1UNM D 1 ? 6 ? 1UNM 1 ? 6 ? 1 6
5 2 1UNM E 1 ? 11 ? NOR00228 1 ? 11 ? 1 11
6 2 1UNM F 1 ? 11 ? NOR00228 1 ? 11 ? 1 11
#
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
5 1UNM PX1 E 6 ? NOR NOR00228 PXZ 6 chromophore 6 1
6 1UNM PX1 F 6 ? NOR NOR00228 PXZ 6 chromophore 6 2
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details author_and_software_defined_assembly
_pdbx_struct_assembly.method_details PQS
_pdbx_struct_assembly.oligomeric_details hexameric
_pdbx_struct_assembly.oligomeric_count 6
#
_pdbx_struct_assembly_gen.assembly_id 1
_pdbx_struct_assembly_gen.oper_expression 1
_pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J
#
_pdbx_struct_oper_list.id 1
_pdbx_struct_oper_list.type 'identity operation'
_pdbx_struct_oper_list.name 1_555
_pdbx_struct_oper_list.symmetry_operation x,y,z
_pdbx_struct_oper_list.matrix[1][1] 1.0000000000
_pdbx_struct_oper_list.matrix[1][2] 0.0000000000
_pdbx_struct_oper_list.matrix[1][3] 0.0000000000
_pdbx_struct_oper_list.vector[1] 0.0000000000
_pdbx_struct_oper_list.matrix[2][1] 0.0000000000
_pdbx_struct_oper_list.matrix[2][2] 1.0000000000
_pdbx_struct_oper_list.matrix[2][3] 0.0000000000
_pdbx_struct_oper_list.vector[2] 0.0000000000
_pdbx_struct_oper_list.matrix[3][1] 0.0000000000
_pdbx_struct_oper_list.matrix[3][2] 0.0000000000
_pdbx_struct_oper_list.matrix[3][3] 1.0000000000
_pdbx_struct_oper_list.vector[3] 0.0000000000
#
loop_
_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 ? A DG 4 "O3'" ? ? ? 1_555 A BRU 5 P ? ? A DG 4 A BRU 5 1_555 ? ? ? ? ? ? ? 1.601 ? ?
covale2 covale both ? A BRU 5 "O3'" ? ? ? 1_555 A DT 6 P ? ? A BRU 5 A DT 6 1_555 ? ? ? ? ? ? ? 1.608 ? ?
covale3 covale both ? B DG 4 "O3'" ? ? ? 1_555 B BRU 5 P ? ? B DG 4 B BRU 5 1_555 ? ? ? ? ? ? ? 1.614 ? ?
covale4 covale both ? B BRU 5 "O3'" ? ? ? 1_555 B DT 6 P ? ? B BRU 5 B DT 6 1_555 ? ? ? ? ? ? ? 1.616 ? ?
covale5 covale both ? C DG 4 "O3'" ? ? ? 1_555 C BRU 5 P ? ? C DG 4 C BRU 5 1_555 ? ? ? ? ? ? ? 1.610 ? ?
covale6 covale both ? C BRU 5 "O3'" ? ? ? 1_555 C DT 6 P ? ? C BRU 5 C DT 6 1_555 ? ? ? ? ? ? ? 1.612 ? ?
covale7 covale both ? D DG 4 "O3'" ? ? ? 1_555 D BRU 5 P ? ? D DG 4 D BRU 5 1_555 ? ? ? ? ? ? ? 1.602 ? ?
covale8 covale both ? D BRU 5 "O3'" ? ? ? 1_555 D DT 6 P ? ? D BRU 5 D DT 6 1_555 ? ? ? ? ? ? ? 1.618 ? ?
covale9 covale both ? E THR 1 C ? ? ? 1_555 E DVA 2 N ? ? E THR 1 E DVA 2 1_555 ? ? ? ? ? ? ? 1.330 ? ?
covale10 covale one ? E THR 1 OG1 ? ? ? 1_555 E MVA 5 C ? ? E THR 1 E MVA 5 1_555 ? ? ? ? ? ? ? 1.349 ? ?
covale11 covale both ? E THR 1 N ? ? ? 1_555 E PX1 6 C0 ? ? E THR 1 E PX1 6 1_555 ? ? ? ? ? ? ? 1.347 ? ?
covale12 covale both ? E DVA 2 C ? ? ? 1_555 E PRO 3 N ? ? E DVA 2 E PRO 3 1_555 ? ? ? ? ? ? ? 1.325 ? ?
covale13 covale both ? E PRO 3 C ? ? ? 1_555 E SAR 4 N ? ? E PRO 3 E SAR 4 1_555 ? ? ? ? ? ? ? 1.325 ? ?
covale14 covale both ? E SAR 4 C ? ? ? 1_555 E MVA 5 N ? ? E SAR 4 E MVA 5 1_555 ? ? ? ? ? ? ? 1.331 ? ?
covale15 covale both ? E PX1 6 "C0'" ? ? ? 1_555 E THR 7 N ? ? E PX1 6 E THR 7 1_555 ? ? ? ? ? ? ? 1.327 ? ?
covale16 covale both ? E THR 7 C ? ? ? 1_555 E DVA 8 N ? ? E THR 7 E DVA 8 1_555 ? ? ? ? ? ? ? 1.329 ? ?
covale17 covale one ? E THR 7 OG1 ? ? ? 1_555 E MVA 11 C ? ? E THR 7 E MVA 11 1_555 ? ? ? ? ? ? ? 1.349 ? ?
covale18 covale both ? E DVA 8 C ? ? ? 1_555 E PRO 9 N ? ? E DVA 8 E PRO 9 1_555 ? ? ? ? ? ? ? 1.328 ? ?
covale19 covale both ? E PRO 9 C ? ? ? 1_555 E SAR 10 N ? ? E PRO 9 E SAR 10 1_555 ? ? ? ? ? ? ? 1.327 ? ?
covale20 covale both ? E SAR 10 C ? ? ? 1_555 E MVA 11 N ? ? E SAR 10 E MVA 11 1_555 ? ? ? ? ? ? ? 1.333 ? ?
covale21 covale both ? F THR 1 C ? ? ? 1_555 F DVA 2 N ? ? F THR 1 F DVA 2 1_555 ? ? ? ? ? ? ? 1.329 ? ?
covale22 covale one ? F THR 1 OG1 ? ? ? 1_555 F MVA 5 C ? ? F THR 1 F MVA 5 1_555 ? ? ? ? ? ? ? 1.350 ? ?
covale23 covale both ? F THR 1 N ? ? ? 1_555 F PX1 6 C0 ? ? F THR 1 F PX1 6 1_555 ? ? ? ? ? ? ? 1.335 ? ?
covale24 covale both ? F DVA 2 C ? ? ? 1_555 F PRO 3 N ? ? F DVA 2 F PRO 3 1_555 ? ? ? ? ? ? ? 1.319 ? ?
covale25 covale both ? F PRO 3 C ? ? ? 1_555 F SAR 4 N ? ? F PRO 3 F SAR 4 1_555 ? ? ? ? ? ? ? 1.328 ? ?
covale26 covale both ? F SAR 4 C ? ? ? 1_555 F MVA 5 N ? ? F SAR 4 F MVA 5 1_555 ? ? ? ? ? ? ? 1.336 ? ?
covale27 covale both ? F PX1 6 "C0'" ? ? ? 1_555 F THR 7 N ? ? F PX1 6 F THR 7 1_555 ? ? ? ? ? ? ? 1.337 ? ?
covale28 covale both ? F THR 7 C ? ? ? 1_555 F DVA 8 N ? ? F THR 7 F DVA 8 1_555 ? ? ? ? ? ? ? 1.323 ? ?
covale29 covale one ? F THR 7 OG1 ? ? ? 1_555 F MVA 11 C ? ? F THR 7 F MVA 11 1_555 ? ? ? ? ? ? ? 1.346 ? ?
covale30 covale both ? F DVA 8 C ? ? ? 1_555 F PRO 9 N ? ? F DVA 8 F PRO 9 1_555 ? ? ? ? ? ? ? 1.315 ? ?
covale31 covale both ? F PRO 9 C ? ? ? 1_555 F SAR 10 N ? ? F PRO 9 F SAR 10 1_555 ? ? ? ? ? ? ? 1.327 ? ?
covale32 covale both ? F SAR 10 C ? ? ? 1_555 F MVA 11 N ? ? F SAR 10 F MVA 11 1_555 ? ? ? ? ? ? ? 1.331 ? ?
hydrog1 hydrog ? ? A BRU 5 N3 ? ? ? 1_555 C DG 4 O6 ? ? A BRU 5 C DG 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
hydrog2 hydrog ? ? A BRU 5 O2 ? ? ? 1_555 C DG 4 N1 ? ? A BRU 5 C DG 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
hydrog3 hydrog ? ? A DT 6 N3 ? ? ? 1_555 C DA 3 N1 ? ? A DT 6 C DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog4 hydrog ? ? A DT 6 O4 ? ? ? 1_555 C DA 3 N6 ? ? A DT 6 C DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog5 hydrog ? ? B DA 3 N1 ? ? ? 1_555 D DT 6 N3 ? ? B DA 3 D DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog6 hydrog ? ? B DA 3 N6 ? ? ? 1_555 D DT 6 O4 ? ? B DA 3 D DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog7 hydrog ? ? B DG 4 N1 ? ? ? 1_555 D BRU 5 O2 ? ? B DG 4 D BRU 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
hydrog8 hydrog ? ? B DG 4 O6 ? ? ? 1_555 D BRU 5 N3 ? ? B DG 4 D BRU 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
hydrog9 hydrog ? ? B BRU 5 N3 ? ? ? 1_555 D DG 4 O6 ? ? B BRU 5 D DG 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
hydrog10 hydrog ? ? B BRU 5 O2 ? ? ? 1_555 D DG 4 N1 ? ? B BRU 5 D DG 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ?
#
loop_
_struct_conn_type.id
_struct_conn_type.criteria
_struct_conn_type.reference
covale ? ?
hydrog ? ?
#
loop_
_pdbx_modification_feature.ordinal
_pdbx_modification_feature.label_comp_id
_pdbx_modification_feature.label_asym_id
_pdbx_modification_feature.label_seq_id
_pdbx_modification_feature.label_alt_id
_pdbx_modification_feature.modified_residue_label_comp_id
_pdbx_modification_feature.modified_residue_label_asym_id
_pdbx_modification_feature.modified_residue_label_seq_id
_pdbx_modification_feature.modified_residue_label_alt_id
_pdbx_modification_feature.auth_comp_id
_pdbx_modification_feature.auth_asym_id
_pdbx_modification_feature.auth_seq_id
_pdbx_modification_feature.PDB_ins_code
_pdbx_modification_feature.symmetry
_pdbx_modification_feature.modified_residue_auth_comp_id
_pdbx_modification_feature.modified_residue_auth_asym_id
_pdbx_modification_feature.modified_residue_auth_seq_id
_pdbx_modification_feature.modified_residue_PDB_ins_code
_pdbx_modification_feature.modified_residue_symmetry
_pdbx_modification_feature.comp_id_linking_atom
_pdbx_modification_feature.modified_residue_id_linking_atom
_pdbx_modification_feature.modified_residue_id
_pdbx_modification_feature.ref_pcm_id
_pdbx_modification_feature.ref_comp_id
_pdbx_modification_feature.type
_pdbx_modification_feature.category
1 SAR E 4 ? . . . . SAR E 4 ? 1_555 . . . . . . . GLY 1 SAR Methylation 'Named protein modification'
2 MVA E 5 ? . . . . MVA E 5 ? 1_555 . . . . . . . VAL 1 MVA Methylation 'Named protein modification'
3 SAR E 10 ? . . . . SAR E 10 ? 1_555 . . . . . . . GLY 1 SAR Methylation 'Named protein modification'
4 MVA E 11 ? . . . . MVA E 11 ? 1_555 . . . . . . . VAL 1 MVA Methylation 'Named protein modification'
5 SAR F 4 ? . . . . SAR F 4 ? 1_555 . . . . . . . GLY 1 SAR Methylation 'Named protein modification'
6 MVA F 5 ? . . . . MVA F 5 ? 1_555 . . . . . . . VAL 1 MVA Methylation 'Named protein modification'
7 SAR F 10 ? . . . . SAR F 10 ? 1_555 . . . . . . . GLY 1 SAR Methylation 'Named protein modification'
8 MVA F 11 ? . . . . MVA F 11 ? 1_555 . . . . . . . VAL 1 MVA Methylation 'Named protein modification'
9 PX1 E 6 ? . . . . PX1 E 6 ? 1_555 . . . . . . . ? 1 PX1 None 'Non-standard residue'
10 PX1 F 6 ? . . . . PX1 F 6 ? 1_555 . . . . . . . ? 1 PX1 None 'Non-standard residue'
11 THR E 1 ? MVA E 5 ? THR E 1 ? 1_555 MVA E 5 ? 1_555 OG1 C . . . None 'Non-standard linkage'
12 THR E 1 ? PX1 E 6 ? THR E 1 ? 1_555 PX1 E 6 ? 1_555 N C0 . . . None 'Non-standard linkage'
13 THR E 7 ? MVA E 11 ? THR E 7 ? 1_555 MVA E 11 ? 1_555 OG1 C . . . None 'Non-standard linkage'
14 THR F 1 ? MVA F 5 ? THR F 1 ? 1_555 MVA F 5 ? 1_555 OG1 C . . . None 'Non-standard linkage'
15 THR F 1 ? PX1 F 6 ? THR F 1 ? 1_555 PX1 F 6 ? 1_555 N C0 . . . None 'Non-standard linkage'
16 THR F 7 ? MVA F 11 ? THR F 7 ? 1_555 MVA F 11 ? 1_555 OG1 C . . . None 'Non-standard linkage'
#
loop_
_struct_mon_prot_cis.pdbx_id
_struct_mon_prot_cis.label_comp_id
_struct_mon_prot_cis.label_seq_id
_struct_mon_prot_cis.label_asym_id
_struct_mon_prot_cis.label_alt_id
_struct_mon_prot_cis.pdbx_PDB_ins_code
_struct_mon_prot_cis.auth_comp_id
_struct_mon_prot_cis.auth_seq_id
_struct_mon_prot_cis.auth_asym_id
_struct_mon_prot_cis.pdbx_label_comp_id_2
_struct_mon_prot_cis.pdbx_label_seq_id_2
_struct_mon_prot_cis.pdbx_label_asym_id_2
_struct_mon_prot_cis.pdbx_PDB_ins_code_2
_struct_mon_prot_cis.pdbx_auth_comp_id_2
_struct_mon_prot_cis.pdbx_auth_seq_id_2
_struct_mon_prot_cis.pdbx_auth_asym_id_2
_struct_mon_prot_cis.pdbx_PDB_model_num
_struct_mon_prot_cis.pdbx_omega_angle
1 DVA 2 E . ? DVA 2 E PRO 3 E ? PRO 3 E 1 8.82
2 PRO 3 E . ? PRO 3 E SAR 4 E ? SAR 4 E 1 -5.13
3 DVA 8 E . ? DVA 8 E PRO 9 E ? PRO 9 E 1 13.64
4 PRO 9 E . ? PRO 9 E SAR 10 E ? SAR 10 E 1 -14.36
5 DVA 2 F . ? DVA 2 F PRO 3 F ? PRO 3 F 1 8.95
6 PRO 3 F . ? PRO 3 F SAR 4 F ? SAR 4 F 1 -3.92
7 DVA 8 F . ? DVA 8 F PRO 9 F ? PRO 9 F 1 9.32
8 PRO 9 F . ? PRO 9 F SAR 10 F ? SAR 10 F 1 -4.92
#
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 ? ? ? ? 8 'BINDING SITE FOR CHAIN E OF 7-AMINOACTINOMYCIN D'
AC2 Software ? ? ? ? 10 'BINDING SITE FOR CHAIN F OF 7-AMINOACTINOMYCIN D'
#
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 8 DA A 3 ? DA A 3 . ? 1_555 ?
2 AC1 8 DG A 4 ? DG A 4 . ? 1_555 ?
3 AC1 8 BRU A 5 ? BRU A 5 . ? 1_555 ?
4 AC1 8 DT A 6 ? DT A 6 . ? 1_555 ?
5 AC1 8 DT B 6 ? DT B 6 . ? 7_556 ?
6 AC1 8 DG C 4 ? DG C 4 . ? 1_555 ?
7 AC1 8 BRU C 5 ? BRU C 5 . ? 1_555 ?
8 AC1 8 DT D 2 ? DT D 2 . ? 7_556 ?
9 AC2 10 DT A 2 ? DT A 2 . ? 7_546 ?
10 AC2 10 DA A 3 ? DA A 3 . ? 7_546 ?
11 AC2 10 HOH G . ? HOH A 2001 . ? 7_546 ?
12 AC2 10 DG B 4 ? DG B 4 . ? 1_555 ?
13 AC2 10 BRU B 5 ? BRU B 5 . ? 1_555 ?
14 AC2 10 DA D 3 ? DA D 3 . ? 1_555 ?
15 AC2 10 DG D 4 ? DG D 4 . ? 3_556 ?
16 AC2 10 DG D 4 ? DG D 4 . ? 1_555 ?
17 AC2 10 BRU D 5 ? BRU D 5 . ? 1_555 ?
18 AC2 10 DT D 6 ? DT D 6 . ? 1_555 ?
#
_pdbx_entry_details.entry_id 1UNM
_pdbx_entry_details.compound_details
;ACTINOMYCIN D IS A BICYCLIC PEPTIDE, A MEMBER OF THE
ACTINOMYCIN FAMILY.
HERE, ACTINOMYCIN D IS REPRESENTED BY THE SEQUENCE (SEQRES)
GROUP: 1
NAME: ACTINOMYCIN D
CHAIN: E, F
COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 11
DESCRIPTION: ACTINOMYCIN D CONSISTS OF TWO PENTAMER
RINGS LINKED BY THE CHROMOPHORE (PX1)
THE CHROMOPHORE PX1 IS A MODIFIED PXZ
WITH C-NH2 REPLACING C-H IN POSITION 7 OF THE
PHENOXAZONE RING.
;
_pdbx_entry_details.source_details ?
_pdbx_entry_details.nonpolymer_details ?
_pdbx_entry_details.sequence_details ?
_pdbx_entry_details.has_ligand_of_interest ?
_pdbx_entry_details.has_protein_modification Y
#
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'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 111.28 108.30 2.98 0.30 N
2 1 "O4'" C DA 3 ? ? "C1'" C DA 3 ? ? N9 C DA 3 ? ? 103.11 108.00 -4.89 0.70 N
3 1 "O4'" D DT 6 ? ? "C1'" D DT 6 ? ? N1 D DT 6 ? ? 101.86 108.00 -6.14 0.70 N
#
_pdbx_validate_main_chain_plane.id 1
_pdbx_validate_main_chain_plane.PDB_model_num 1
_pdbx_validate_main_chain_plane.auth_comp_id PRO
_pdbx_validate_main_chain_plane.auth_asym_id E
_pdbx_validate_main_chain_plane.auth_seq_id 9
_pdbx_validate_main_chain_plane.PDB_ins_code ?
_pdbx_validate_main_chain_plane.label_alt_id ?
_pdbx_validate_main_chain_plane.improper_torsion_angle -11.77
#
_pdbx_molecule_features.prd_id PRD_000010
_pdbx_molecule_features.name 7-AminoActinomycin
_pdbx_molecule_features.type Polypeptide
_pdbx_molecule_features.class Antibiotic
_pdbx_molecule_features.details
;ACTINOMYCIN D CONSISTS OF TWO PENTAMER
RINGS LINKED BY THE CHROMOPHORE (PX1)
THE CHROMOPHORE PX1 IS A MODIFIED PXZ
WITH C-NH2 REPLACING C-H IN POSITION 7 OF THE
PHENOXAZONE RING.
;
#
loop_
_pdbx_molecule.instance_id
_pdbx_molecule.prd_id
_pdbx_molecule.asym_id
1 PRD_000010 E
2 PRD_000010 F
#
loop_
_pdbx_struct_mod_residue.id
_pdbx_struct_mod_residue.label_asym_id
_pdbx_struct_mod_residue.label_comp_id
_pdbx_struct_mod_residue.label_seq_id
_pdbx_struct_mod_residue.auth_asym_id
_pdbx_struct_mod_residue.auth_comp_id
_pdbx_struct_mod_residue.auth_seq_id
_pdbx_struct_mod_residue.PDB_ins_code
_pdbx_struct_mod_residue.parent_comp_id
_pdbx_struct_mod_residue.details
1 A BRU 5 A BRU 5 ? DU ?
2 B BRU 5 B BRU 5 ? DU ?
3 C BRU 5 C BRU 5 ? DU ?
4 D BRU 5 D BRU 5 ? DU ?
5 E SAR 4 E SAR 4 ? GLY SARCOSINE
6 E MVA 5 E MVA 5 ? VAL N-METHYLVALINE
7 E SAR 10 E SAR 10 ? GLY SARCOSINE
8 E MVA 11 E MVA 11 ? VAL N-METHYLVALINE
9 F SAR 4 F SAR 4 ? GLY SARCOSINE
10 F MVA 5 F MVA 5 ? VAL N-METHYLVALINE
11 F SAR 10 F SAR 10 ? GLY SARCOSINE
12 F MVA 11 F MVA 11 ? VAL N-METHYLVALINE
#
loop_
_pdbx_unobs_or_zero_occ_residues.id
_pdbx_unobs_or_zero_occ_residues.PDB_model_num
_pdbx_unobs_or_zero_occ_residues.polymer_flag
_pdbx_unobs_or_zero_occ_residues.occupancy_flag
_pdbx_unobs_or_zero_occ_residues.auth_asym_id
_pdbx_unobs_or_zero_occ_residues.auth_comp_id
_pdbx_unobs_or_zero_occ_residues.auth_seq_id
_pdbx_unobs_or_zero_occ_residues.PDB_ins_code
_pdbx_unobs_or_zero_occ_residues.label_asym_id
_pdbx_unobs_or_zero_occ_residues.label_comp_id
_pdbx_unobs_or_zero_occ_residues.label_seq_id
1 1 Y 1 B DT 1 ? B DT 1
2 1 Y 1 C DT 1 ? C DT 1
3 1 Y 1 D DT 1 ? D DT 1
#
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
BRU N1 N N N 1
BRU C2 C N N 2
BRU N3 N N N 3
BRU C4 C N N 4
BRU C5 C N N 5
BRU C6 C N N 6
BRU O2 O N N 7
BRU O4 O N N 8
BRU BR BR N N 9
BRU "C1'" C N R 10
BRU "C2'" C N N 11
BRU "C3'" C N S 12
BRU "C4'" C N R 13
BRU "O3'" O N N 14
BRU "O4'" O N N 15
BRU "C5'" C N N 16
BRU "O5'" O N N 17
BRU P P N N 18
BRU OP1 O N N 19
BRU OP2 O N N 20
BRU OP3 O N N 21
BRU HN3 H N N 22
BRU H6 H N N 23
BRU "H1'" H N N 24
BRU "H2'" H N N 25
BRU "H2''" H N N 26
BRU "H3'" H N N 27
BRU "H4'" H N N 28
BRU "HO3'" H N N 29
BRU "H5'" H N N 30
BRU "H5''" H N N 31
BRU HOP2 H N N 32
BRU HOP3 H N N 33
DA OP3 O N N 34
DA P P N N 35
DA OP1 O N N 36
DA OP2 O N N 37
DA "O5'" O N N 38
DA "C5'" C N N 39
DA "C4'" C N R 40
DA "O4'" O N N 41
DA "C3'" C N S 42
DA "O3'" O N N 43
DA "C2'" C N N 44
DA "C1'" C N R 45
DA N9 N Y N 46
DA C8 C Y N 47
DA N7 N Y N 48
DA C5 C Y N 49
DA C6 C Y N 50
DA N6 N N N 51
DA N1 N Y N 52
DA C2 C Y N 53
DA N3 N Y N 54
DA C4 C Y N 55
DA HOP3 H N N 56
DA HOP2 H N N 57
DA "H5'" H N N 58
DA "H5''" H N N 59
DA "H4'" H N N 60
DA "H3'" H N N 61
DA "HO3'" H N N 62
DA "H2'" H N N 63
DA "H2''" H N N 64
DA "H1'" H N N 65
DA H8 H N N 66
DA H61 H N N 67
DA H62 H N N 68
DA H2 H N N 69
DG OP3 O N N 70
DG P P N N 71
DG OP1 O N N 72
DG OP2 O N N 73
DG "O5'" O N N 74
DG "C5'" C N N 75
DG "C4'" C N R 76
DG "O4'" O N N 77
DG "C3'" C N S 78
DG "O3'" O N N 79
DG "C2'" C N N 80
DG "C1'" C N R 81
DG N9 N Y N 82
DG C8 C Y N 83
DG N7 N Y N 84
DG C5 C Y N 85
DG C6 C N N 86
DG O6 O N N 87
DG N1 N N N 88
DG C2 C N N 89
DG N2 N N N 90
DG N3 N N N 91
DG C4 C Y N 92
DG HOP3 H N N 93
DG HOP2 H N N 94
DG "H5'" H N N 95
DG "H5''" H N N 96
DG "H4'" H N N 97
DG "H3'" H N N 98
DG "HO3'" H N N 99
DG "H2'" H N N 100
DG "H2''" H N N 101
DG "H1'" H N N 102
DG H8 H N N 103
DG H1 H N N 104
DG H21 H N N 105
DG H22 H N N 106
DT OP3 O N N 107
DT P P N N 108
DT OP1 O N N 109
DT OP2 O N N 110
DT "O5'" O N N 111
DT "C5'" C N N 112
DT "C4'" C N R 113
DT "O4'" O N N 114
DT "C3'" C N S 115
DT "O3'" O N N 116
DT "C2'" C N N 117
DT "C1'" C N R 118
DT N1 N N N 119
DT C2 C N N 120
DT O2 O N N 121
DT N3 N N N 122
DT C4 C N N 123
DT O4 O N N 124
DT C5 C N N 125
DT C7 C N N 126
DT C6 C N N 127
DT HOP3 H N N 128
DT HOP2 H N N 129
DT "H5'" H N N 130
DT "H5''" H N N 131
DT "H4'" H N N 132
DT "H3'" H N N 133
DT "HO3'" H N N 134
DT "H2'" H N N 135
DT "H2''" H N N 136
DT "H1'" H N N 137
DT H3 H N N 138
DT H71 H N N 139
DT H72 H N N 140
DT H73 H N N 141
DT H6 H N N 142
DVA N N N N 143
DVA CA C N R 144
DVA CB C N N 145
DVA CG1 C N N 146
DVA CG2 C N N 147
DVA C C N N 148
DVA O O N N 149
DVA OXT O N N 150
DVA H H N N 151
DVA H2 H N N 152
DVA HA H N N 153
DVA HB H N N 154
DVA HG11 H N N 155
DVA HG12 H N N 156
DVA HG13 H N N 157
DVA HG21 H N N 158
DVA HG22 H N N 159
DVA HG23 H N N 160
DVA HXT H N N 161
HOH O O N N 162
HOH H1 H N N 163
HOH H2 H N N 164
MVA N N N N 165
MVA CN C N N 166
MVA CA C N S 167
MVA CB C N N 168
MVA CG1 C N N 169
MVA CG2 C N N 170
MVA C C N N 171
MVA O O N N 172
MVA OXT O N N 173
MVA H H N N 174
MVA HN1 H N N 175
MVA HN2 H N N 176
MVA HN3 H N N 177
MVA HA H N N 178
MVA HB H N N 179
MVA HG11 H N N 180
MVA HG12 H N N 181
MVA HG13 H N N 182
MVA HG21 H N N 183
MVA HG22 H N N 184
MVA HG23 H N N 185
MVA HXT H N N 186
PRO N N N N 187
PRO CA C N S 188
PRO C C N N 189
PRO O O N N 190
PRO CB C N N 191
PRO CG C N N 192
PRO CD C N N 193
PRO OXT O N N 194
PRO H H N N 195
PRO HA H N N 196
PRO HB2 H N N 197
PRO HB3 H N N 198
PRO HG2 H N N 199
PRO HG3 H N N 200
PRO HD2 H N N 201
PRO HD3 H N N 202
PRO HXT H N N 203
PX1 C1 C N N 204
PX1 C0 C N N 205
PX1 O1 O N N 206
PX1 C2 C N N 207
PX1 N2 N N N 208
PX1 C3 C N N 209
PX1 O3 O N N 210
PX1 C4 C N N 211
PX1 O5 O N N 212
PX1 C6 C Y N 213
PX1 C7 C Y N 214
PX1 C8 C Y N 215
PX1 C9 C Y N 216
PX1 "C0'" C N N 217
PX1 "O1'" O N N 218
PX1 N10 N N N 219
PX1 C11 C N N 220
PX1 C12 C N N 221
PX1 C13 C Y N 222
PX1 C14 C Y N 223
PX1 C15 C N N 224
PX1 C16 C N N 225
PX1 N7 N N N 226
PX1 H4 H N N 227
PX1 H3 H N N 228
PX1 H8 H N N 229
PX1 H151 H N N 230
PX1 H152 H N N 231
PX1 H153 H N N 232
PX1 H161 H N N 233
PX1 H162 H N N 234
PX1 H163 H N N 235
PX1 H7N1 H N N 236
PX1 H7N2 H N N 237
PX1 "OXT'" O N N 238
PX1 OXT O N N 239
PX1 "HXT'" H N N 240
PX1 HXT H N N 241
PXZ C1 C N N 242
PXZ C0 C N N 243
PXZ O1 O N N 244
PXZ C2 C N N 245
PXZ N2 N N N 246
PXZ C3 C N N 247
PXZ O3 O N N 248
PXZ C4 C N N 249
PXZ O5 O N N 250
PXZ C6 C Y N 251
PXZ C7 C Y N 252
PXZ C8 C Y N 253
PXZ C9 C Y N 254
PXZ "C0'" C N N 255
PXZ "O1'" O N N 256
PXZ N10 N N N 257
PXZ C11 C N N 258
PXZ C12 C N N 259
PXZ C13 C Y N 260
PXZ C14 C Y N 261
PXZ C15 C N N 262
PXZ C16 C N N 263
PXZ HN21 H N N 264
PXZ HN22 H N N 265
PXZ H7 H N N 266
PXZ H8 H N N 267
PXZ H151 H N N 268
PXZ H152 H N N 269
PXZ H153 H N N 270
PXZ H161 H N N 271
PXZ H162 H N N 272
PXZ H163 H N N 273
PXZ "OXT'" O N N 274
PXZ OXT O N N 275
PXZ "HXT'" H N N 276
PXZ HXT H N N 277
SAR N N N N 278
SAR CA C N N 279
SAR C C N N 280
SAR O O N N 281
SAR CN C N N 282
SAR OXT O N N 283
SAR H H N N 284
SAR HA2 H N N 285
SAR HA3 H N N 286
SAR HN1 H N N 287
SAR HN2 H N N 288
SAR HN3 H N N 289
SAR HXT H N N 290
THR N N N N 291
THR CA C N S 292
THR C C N N 293
THR O O N N 294
THR CB C N R 295
THR OG1 O N N 296
THR CG2 C N N 297
THR OXT O N N 298
THR H H N N 299
THR H2 H N N 300
THR HA H N N 301
THR HB H N N 302
THR HG1 H N N 303
THR HG21 H N N 304
THR HG22 H N N 305
THR HG23 H N N 306
THR HXT H N N 307
#
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
BRU N1 C2 sing N N 1
BRU N1 C6 sing N N 2
BRU N1 "C1'" sing N N 3
BRU C2 N3 sing N N 4
BRU C2 O2 doub N N 5
BRU N3 C4 sing N N 6
BRU N3 HN3 sing N N 7
BRU C4 C5 sing N N 8
BRU C4 O4 doub N N 9
BRU C5 C6 doub N N 10
BRU C5 BR sing N N 11
BRU C6 H6 sing N N 12
BRU "C1'" "C2'" sing N N 13
BRU "C1'" "O4'" sing N N 14
BRU "C1'" "H1'" sing N N 15
BRU "C2'" "C3'" sing N N 16
BRU "C2'" "H2'" sing N N 17
BRU "C2'" "H2''" sing N N 18
BRU "C3'" "C4'" sing N N 19
BRU "C3'" "O3'" sing N N 20
BRU "C3'" "H3'" sing N N 21
BRU "C4'" "O4'" sing N N 22
BRU "C4'" "C5'" sing N N 23
BRU "C4'" "H4'" sing N N 24
BRU "O3'" "HO3'" sing N N 25
BRU "C5'" "O5'" sing N N 26
BRU "C5'" "H5'" sing N N 27
BRU "C5'" "H5''" sing N N 28
BRU "O5'" P sing N N 29
BRU P OP1 doub N N 30
BRU P OP2 sing N N 31
BRU P OP3 sing N N 32
BRU OP2 HOP2 sing N N 33
BRU OP3 HOP3 sing N N 34
DA OP3 P sing N N 35
DA OP3 HOP3 sing N N 36
DA P OP1 doub N N 37
DA P OP2 sing N N 38
DA P "O5'" sing N N 39
DA OP2 HOP2 sing N N 40
DA "O5'" "C5'" sing N N 41
DA "C5'" "C4'" sing N N 42
DA "C5'" "H5'" sing N N 43
DA "C5'" "H5''" sing N N 44
DA "C4'" "O4'" sing N N 45
DA "C4'" "C3'" sing N N 46
DA "C4'" "H4'" sing N N 47
DA "O4'" "C1'" sing N N 48
DA "C3'" "O3'" sing N N 49
DA "C3'" "C2'" sing N N 50
DA "C3'" "H3'" sing N N 51
DA "O3'" "HO3'" sing N N 52
DA "C2'" "C1'" sing N N 53
DA "C2'" "H2'" sing N N 54
DA "C2'" "H2''" sing N N 55
DA "C1'" N9 sing N N 56
DA "C1'" "H1'" sing N N 57
DA N9 C8 sing Y N 58
DA N9 C4 sing Y N 59
DA C8 N7 doub Y N 60
DA C8 H8 sing N N 61
DA N7 C5 sing Y N 62
DA C5 C6 sing Y N 63
DA C5 C4 doub Y N 64
DA C6 N6 sing N N 65
DA C6 N1 doub Y N 66
DA N6 H61 sing N N 67
DA N6 H62 sing N N 68
DA N1 C2 sing Y N 69
DA C2 N3 doub Y N 70
DA C2 H2 sing N N 71
DA N3 C4 sing Y N 72
DG OP3 P sing N N 73
DG OP3 HOP3 sing N N 74
DG P OP1 doub N N 75
DG P OP2 sing N N 76
DG P "O5'" sing N N 77
DG OP2 HOP2 sing N N 78
DG "O5'" "C5'" sing N N 79
DG "C5'" "C4'" sing N N 80
DG "C5'" "H5'" sing N N 81
DG "C5'" "H5''" sing N N 82
DG "C4'" "O4'" sing N N 83
DG "C4'" "C3'" sing N N 84
DG "C4'" "H4'" sing N N 85
DG "O4'" "C1'" sing N N 86
DG "C3'" "O3'" sing N N 87
DG "C3'" "C2'" sing N N 88
DG "C3'" "H3'" sing N N 89
DG "O3'" "HO3'" sing N N 90
DG "C2'" "C1'" sing N N 91
DG "C2'" "H2'" sing N N 92
DG "C2'" "H2''" sing N N 93
DG "C1'" N9 sing N N 94
DG "C1'" "H1'" sing N N 95
DG N9 C8 sing Y N 96
DG N9 C4 sing Y N 97
DG C8 N7 doub Y N 98
DG C8 H8 sing N N 99
DG N7 C5 sing Y N 100
DG C5 C6 sing N N 101
DG C5 C4 doub Y N 102
DG C6 O6 doub N N 103
DG C6 N1 sing N N 104
DG N1 C2 sing N N 105
DG N1 H1 sing N N 106
DG C2 N2 sing N N 107
DG C2 N3 doub N N 108
DG N2 H21 sing N N 109
DG N2 H22 sing N N 110
DG N3 C4 sing N N 111
DT OP3 P sing N N 112
DT OP3 HOP3 sing N N 113
DT P OP1 doub N N 114
DT P OP2 sing N N 115
DT P "O5'" sing N N 116
DT OP2 HOP2 sing N N 117
DT "O5'" "C5'" sing N N 118
DT "C5'" "C4'" sing N N 119
DT "C5'" "H5'" sing N N 120
DT "C5'" "H5''" sing N N 121
DT "C4'" "O4'" sing N N 122
DT "C4'" "C3'" sing N N 123
DT "C4'" "H4'" sing N N 124
DT "O4'" "C1'" sing N N 125
DT "C3'" "O3'" sing N N 126
DT "C3'" "C2'" sing N N 127
DT "C3'" "H3'" sing N N 128
DT "O3'" "HO3'" sing N N 129
DT "C2'" "C1'" sing N N 130
DT "C2'" "H2'" sing N N 131
DT "C2'" "H2''" sing N N 132
DT "C1'" N1 sing N N 133
DT "C1'" "H1'" sing N N 134
DT N1 C2 sing N N 135
DT N1 C6 sing N N 136
DT C2 O2 doub N N 137
DT C2 N3 sing N N 138
DT N3 C4 sing N N 139
DT N3 H3 sing N N 140
DT C4 O4 doub N N 141
DT C4 C5 sing N N 142
DT C5 C7 sing N N 143
DT C5 C6 doub N N 144
DT C7 H71 sing N N 145
DT C7 H72 sing N N 146
DT C7 H73 sing N N 147
DT C6 H6 sing N N 148
DVA N CA sing N N 149
DVA N H sing N N 150
DVA N H2 sing N N 151
DVA CA CB sing N N 152
DVA CA C sing N N 153
DVA CA HA sing N N 154
DVA CB CG1 sing N N 155
DVA CB CG2 sing N N 156
DVA CB HB sing N N 157
DVA CG1 HG11 sing N N 158
DVA CG1 HG12 sing N N 159
DVA CG1 HG13 sing N N 160
DVA CG2 HG21 sing N N 161
DVA CG2 HG22 sing N N 162
DVA CG2 HG23 sing N N 163
DVA C O doub N N 164
DVA C OXT sing N N 165
DVA OXT HXT sing N N 166
HOH O H1 sing N N 167
HOH O H2 sing N N 168
MVA N CN sing N N 169
MVA N CA sing N N 170
MVA N H sing N N 171
MVA CN HN1 sing N N 172
MVA CN HN2 sing N N 173
MVA CN HN3 sing N N 174
MVA CA CB sing N N 175
MVA CA C sing N N 176
MVA CA HA sing N N 177
MVA CB CG1 sing N N 178
MVA CB CG2 sing N N 179
MVA CB HB sing N N 180
MVA CG1 HG11 sing N N 181
MVA CG1 HG12 sing N N 182
MVA CG1 HG13 sing N N 183
MVA CG2 HG21 sing N N 184
MVA CG2 HG22 sing N N 185
MVA CG2 HG23 sing N N 186
MVA C O doub N N 187
MVA C OXT sing N N 188
MVA OXT HXT sing N N 189
PRO N CA sing N N 190
PRO N CD sing N N 191
PRO N H sing N N 192
PRO CA C sing N N 193
PRO CA CB sing N N 194
PRO CA HA sing N N 195
PRO C O doub N N 196
PRO C OXT sing N N 197
PRO CB CG sing N N 198
PRO CB HB2 sing N N 199
PRO CB HB3 sing N N 200
PRO CG CD sing N N 201
PRO CG HG2 sing N N 202
PRO CG HG3 sing N N 203
PRO CD HD2 sing N N 204
PRO CD HD3 sing N N 205
PRO OXT HXT sing N N 206
PX1 C1 C0 doub N N 207
PX1 C1 C2 sing N N 208
PX1 C1 C11 sing N N 209
PX1 C0 O1 sing N N 210
PX1 O1 H4 sing N N 211
PX1 C2 N2 doub N N 212
PX1 C2 C3 sing N N 213
PX1 N2 H3 sing N N 214
PX1 C3 O3 doub N N 215
PX1 C3 C4 sing N N 216
PX1 C4 C12 doub N N 217
PX1 C4 C15 sing N N 218
PX1 O5 C12 sing N N 219
PX1 O5 C13 sing N N 220
PX1 C6 C7 doub Y N 221
PX1 C6 C13 sing Y N 222
PX1 C6 C16 sing N N 223
PX1 C7 C8 sing Y N 224
PX1 C7 N7 sing N N 225
PX1 C8 C9 doub Y N 226
PX1 C8 H8 sing N N 227
PX1 C9 "C0'" sing N N 228
PX1 C9 C14 sing Y N 229
PX1 "C0'" "O1'" doub N N 230
PX1 N10 C11 doub N N 231
PX1 N10 C14 sing N N 232
PX1 C11 C12 sing N N 233
PX1 C13 C14 doub Y N 234
PX1 C15 H151 sing N N 235
PX1 C15 H152 sing N N 236
PX1 C15 H153 sing N N 237
PX1 C16 H161 sing N N 238
PX1 C16 H162 sing N N 239
PX1 C16 H163 sing N N 240
PX1 N7 H7N1 sing N N 241
PX1 N7 H7N2 sing N N 242
PX1 "C0'" "OXT'" sing N N 243
PX1 C0 OXT sing N N 244
PX1 "OXT'" "HXT'" sing N N 245
PX1 OXT HXT sing N N 246
PXZ C1 C0 sing N N 247
PXZ C1 C2 doub N N 248
PXZ C1 C11 sing N N 249
PXZ C0 O1 doub N N 250
PXZ C2 N2 sing N N 251
PXZ C2 C3 sing N N 252
PXZ N2 HN21 sing N N 253
PXZ N2 HN22 sing N N 254
PXZ C3 O3 doub N N 255
PXZ C3 C4 sing N N 256
PXZ C4 C12 doub N N 257
PXZ C4 C15 sing N N 258
PXZ O5 C12 sing N N 259
PXZ O5 C13 sing N N 260
PXZ C6 C7 doub Y N 261
PXZ C6 C13 sing Y N 262
PXZ C6 C16 sing N N 263
PXZ C7 C8 sing Y N 264
PXZ C7 H7 sing N N 265
PXZ C8 C9 doub Y N 266
PXZ C8 H8 sing N N 267
PXZ C9 "C0'" sing N N 268
PXZ C9 C14 sing Y N 269
PXZ "C0'" "O1'" doub N N 270
PXZ N10 C11 doub N N 271
PXZ N10 C14 sing N N 272
PXZ C11 C12 sing N N 273
PXZ C13 C14 doub Y N 274
PXZ C15 H151 sing N N 275
PXZ C15 H152 sing N N 276
PXZ C15 H153 sing N N 277
PXZ C16 H161 sing N N 278
PXZ C16 H162 sing N N 279
PXZ C16 H163 sing N N 280
PXZ "C0'" "OXT'" sing N N 281
PXZ C0 OXT sing N N 282
PXZ "OXT'" "HXT'" sing N N 283
PXZ OXT HXT sing N N 284
SAR N CA sing N N 285
SAR N CN sing N N 286
SAR N H sing N N 287
SAR CA C sing N N 288
SAR CA HA2 sing N N 289
SAR CA HA3 sing N N 290
SAR C O doub N N 291
SAR C OXT sing N N 292
SAR CN HN1 sing N N 293
SAR CN HN2 sing N N 294
SAR CN HN3 sing N N 295
SAR OXT HXT sing N N 296
THR N CA sing N N 297
THR N H sing N N 298
THR N H2 sing N N 299
THR CA C sing N N 300
THR CA CB sing N N 301
THR CA HA sing N N 302
THR C O doub N N 303
THR C OXT sing N N 304
THR CB OG1 sing N N 305
THR CB CG2 sing N N 306
THR CB HB sing N N 307
THR OG1 HG1 sing N N 308
THR CG2 HG21 sing N N 309
THR CG2 HG22 sing N N 310
THR CG2 HG23 sing N N 311
THR OXT HXT sing N N 312
#
_ndb_struct_conf_na.entry_id 1UNM
_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 BRU 5 1_555 C DG 4 1_555 2.222 -0.559 0.632 -1.930 -6.663 3.956 1 A_BRU5:DG4_C A 5 ? C 4 ? 28 1
1 A DT 6 1_555 C DA 3 1_555 -0.334 -0.159 -0.001 10.575 -9.944 -1.004 2 A_DT6:DA3_C A 6 ? C 3 ? 20 1
1 B DA 3 1_555 D DT 6 1_555 0.266 -0.194 0.234 -5.506 -12.148 -0.531 3 B_DA3:DT6_D B 3 ? D 6 ? 20 1
1 B DG 4 1_555 D BRU 5 1_555 -2.197 -0.385 0.283 4.466 3.761 7.544 4 B_DG4:BRU5_D B 4 ? D 5 ? 28 1
1 B BRU 5 1_555 D DG 4 1_555 2.334 -0.746 0.297 -9.496 6.632 -9.873 5 B_BRU5:DG4_D B 5 ? D 4 ? 28 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 BRU 5 1_555 C DG 4 1_555 A DT 6 1_555 C DA 3 1_555 -0.300 0.067 2.885 7.077 9.608 17.652 -3.273 3.357 2.329 27.585
-20.319 21.281 1 AA_BRU5DT6:DA3DG4_CC A 5 ? C 4 ? A 6 ? C 3 ?
1 A DT 6 1_555 C DA 3 1_555 B DA 3 1_555 D DT 6 1_555 -0.003 1.877 4.110 -0.779 -6.292 -24.516 -1.857 -0.308 4.443 14.510 -1.797
-25.310 2 AB_DT6DA3:DT6DA3_DC A 6 ? C 3 ? B 3 ? D 6 ?
1 B DA 3 1_555 D DT 6 1_555 B DG 4 1_555 D BRU 5 1_555 0.589 0.341 3.051 -2.298 12.843 15.202 -4.778 -2.726 2.473 40.204 7.193
20.008 3 BB_DA3DG4:BRU5DT6_DD B 3 ? D 6 ? B 4 ? D 5 ?
#
_atom_sites.entry_id 1UNM
_atom_sites.fract_transf_matrix[1][1] 0.019385
_atom_sites.fract_transf_matrix[1][2] 0.000000
_atom_sites.fract_transf_matrix[1][3] 0.000000
_atom_sites.fract_transf_matrix[2][1] 0.000000
_atom_sites.fract_transf_matrix[2][2] 0.014089
_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] 0.025347
_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
BR
C
N
O
P
#
loop_