data_1HHZ
#
_entry.id 1HHZ
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.329
_audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
#
loop_
_database_2.database_id
_database_2.database_code
PDB 1HHZ
PDBE EBI-5734
WWPDB D_1290005734
#
loop_
_pdbx_database_related.db_name
_pdbx_database_related.db_id
_pdbx_database_related.content_type
_pdbx_database_related.details
PDB 1GO6 unspecified 'CRYSTAL STRUCTURE OF BALHIMYCIN COMPLEXED WITH THE PEPTIDE LYS-DAL-DAL'
PDB 1HHY unspecified 'CRYSTAL STRUCURE OF DEGLUCOBALHIMYCIN COMPLEXED WITH DAL-DAL'
PDB 1HHU unspecified 'CRYSTAL STRUCTURE OF BALHIMYCIN COMPLEXED WITH DAL-DAL'
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 1HHZ
_pdbx_database_status.deposit_site PDBE
_pdbx_database_status.process_site PDBE
_pdbx_database_status.SG_entry .
_pdbx_database_status.recvd_initial_deposition_date 2000-12-29
_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_
_audit_author.name
_audit_author.pdbx_ordinal
'Lehmann, C.' 1
'Bunkoczi, G.' 2
'Sheldrick, G.M.' 3
'Vertesy, L.' 4
#
_citation.id primary
_citation.title
'Structures of Glycopeptide Antibiotics with Peptides that Model Bacterial Cell-Wall Precursors'
_citation.journal_abbrev J.Mol.Biol.
_citation.journal_volume 318
_citation.page_first 723
_citation.page_last ?
_citation.year 2002
_citation.journal_id_ASTM JMOBAK
_citation.country UK
_citation.journal_id_ISSN 0022-2836
_citation.journal_id_CSD 0070
_citation.book_publisher ?
_citation.pdbx_database_id_PubMed 12054818
_citation.pdbx_database_id_DOI '10.1016/S0022-2836(02)00146-8'
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Lehmann, C.' 1 ?
primary 'Bunkoczi, G.' 2 ?
primary 'Vertesy, L.' 3 ?
primary 'Sheldrick, G.M.' 4 ?
#
_cell.entry_id 1HHZ
_cell.length_a 48.290
_cell.length_b 48.290
_cell.length_c 39.300
_cell.angle_alpha 90.00
_cell.angle_beta 90.00
_cell.angle_gamma 120.00
_cell.Z_PDB 18
_cell.pdbx_unique_axis ?
#
_symmetry.entry_id 1HHZ
_symmetry.space_group_name_H-M 'P 32 2 1'
_symmetry.pdbx_full_space_group_name_H-M ?
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 154
#
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 DEGLUCOBALHIMYCIN 1149.977 3 ? ? ? ?
2 polymer syn 'CELL WALL PEPTIDE' 489.542 3 ? ? ? ?
3 non-polymer man '(2R,4S,6S)-4-azanyl-4,6-dimethyl-oxane-2,5,5-triol' 177.198 3 ? ? ? ?
4 non-polymer syn R-1,2-PROPANEDIOL 76.094 4 ? ? ? ?
5 water nat water 18.015 95 ? ? ? ?
#
loop_
_entity_poly.entity_id
_entity_poly.type
_entity_poly.nstd_linkage
_entity_poly.nstd_monomer
_entity_poly.pdbx_seq_one_letter_code
_entity_poly.pdbx_seq_one_letter_code_can
_entity_poly.pdbx_strand_id
_entity_poly.pdbx_target_identifier
1 'polypeptide(L)' no yes '(MLU)(OMZ)N(GHP)(GHP)(OMY)(3FG)' XXNGGYX A,B,C ?
2 'polypeptide(L)' no yes '(DAL)(FGA)K(DAL)(DAL)' AEKAA D,E,F ?
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 MLU n
1 2 OMZ n
1 3 ASN n
1 4 GHP n
1 5 GHP n
1 6 OMY n
1 7 3FG n
2 1 DAL n
2 2 FGA n
2 3 LYS n
2 4 DAL n
2 5 DAL 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 ? ? 'AMYCOLATOPSIS SP.' ? 37632 ?
2 1 sample ? ? 'synthetic construct' ? 32630 ?
#
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 NOR NOR00707 1 ? ? NOR00707 ?
2 PDB 1HHZ 2 ? ? 1HHZ ?
#
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 1HHZ A 1 ? 7 ? NOR00707 1 ? 7 ? 1 7
2 1 1HHZ B 1 ? 7 ? NOR00707 1 ? 7 ? 1 7
3 1 1HHZ C 1 ? 7 ? NOR00707 1 ? 7 ? 1 7
4 2 1HHZ D 1 ? 5 ? 1HHZ 1 ? 5 ? 1 5
5 2 1HHZ E 1 ? 5 ? 1HHZ 1 ? 5 ? 1 5
6 2 1HHZ F 1 ? 5 ? 1HHZ 1 ? 5 ? 1 5
#
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
3FG 'L-peptide linking' . '(2S)-amino(3,5-dihydroxyphenyl)ethanoic acid' ? 'C8 H9 N O4'
183.161
ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3'
132.118
DAL 'D-peptide linking' . D-ALANINE ? 'C3 H7 N O2'
89.093
DVC 'L-saccharide, alpha linking' . '(2R,4S,6S)-4-azanyl-4,6-dimethyl-oxane-2,5,5-triol' ? 'C7 H15 N O4'
177.198
FGA 'D-gamma-peptide, C-delta linking' . 'GAMMA-D-GLUTAMIC ACID' 'D-GLUTAMIC ACID' 'C5 H9 N O4'
147.129
GHP 'D-peptide linking' . '(2R)-amino(4-hydroxyphenyl)ethanoic acid' ? 'C8 H9 N O3'
167.162
HOH non-polymer . WATER ? 'H2 O'
18.015
LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1'
147.195
MLU 'D-peptide linking' . N-methyl-D-leucine ? 'C7 H15 N O2'
145.199
OMY 'L-peptide linking' n '(betaR)-3-chloro-beta-hydroxy-L-tyrosine' ? 'C9 H10 Cl N O4'
231.633
OMZ 'D-peptide linking' . '(betaR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE' ? 'C9 H10 Cl N O4'
231.633
PGR non-polymer . R-1,2-PROPANEDIOL ? 'C3 H8 O2'
76.094
#
_exptl.entry_id 1HHZ
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 2.7
_exptl_crystal.density_percent_sol 38.1
_exptl_crystal.description ?
#
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.method ?
_exptl_crystal_grow.temp ?
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.pH 7.00
_exptl_crystal_grow.pdbx_pH_range ?
_exptl_crystal_grow.pdbx_details '0.3M CIT, PH=7, 30% 1,2-PROPANEDIOL, pH 7.00'
#
_diffrn.id 1
_diffrn.ambient_temp 100.0
_diffrn.ambient_temp_details ?
_diffrn.crystal_id 1
#
_diffrn_detector.diffrn_id 1
_diffrn_detector.detector 'IMAGE PLATE'
_diffrn_detector.type MARRESEARCH
_diffrn_detector.pdbx_collection_date 1999-03-15
_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 'SINGLE WAVELENGTH'
_diffrn_radiation.pdbx_scattering_type x-ray
#
_diffrn_radiation_wavelength.id 1
_diffrn_radiation_wavelength.wavelength 0.9114
_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 0.9114
_diffrn_source.pdbx_wavelength_list ?
#
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.entry_id 1HHZ
_reflns.observed_criterion_sigma_I ?
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 41.850
_reflns.d_resolution_high 0.990
_reflns.number_obs 29932
_reflns.number_all ?
_reflns.percent_possible_obs 99.9
_reflns.pdbx_Rmerge_I_obs 0.05300
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI ?
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy 7.500
#
_reflns_shell.pdbx_diffrn_id 1
_reflns_shell.pdbx_ordinal 1
_reflns_shell.d_res_high 0.99
_reflns_shell.d_res_low 1.10
_reflns_shell.percent_possible_all 100.0
_reflns_shell.Rmerge_I_obs 0.19000
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs ?
_reflns_shell.pdbx_redundancy 7.50
#
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.entry_id 1HHZ
_refine.pdbx_diffrn_id 1
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.ls_number_reflns_obs ?
_refine.ls_number_reflns_all 29932
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F ?
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.ls_d_res_low 41.85
_refine.ls_d_res_high 0.99
_refine.ls_percent_reflns_obs 99.9
_refine.ls_R_factor_obs 0.1075
_refine.ls_R_factor_all 0.1083
_refine.ls_R_factor_R_work ?
_refine.ls_R_factor_R_free 0.1403
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_percent_reflns_R_free 5.1
_refine.ls_number_reflns_R_free 1529
_refine.ls_number_parameters 4237
_refine.ls_number_restraints 4905
_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 'METHOD USED: MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-228'
_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 THROUGHOUT
_refine.details ?
_refine.pdbx_starting_model ?
_refine.pdbx_method_to_determine_struct 'DIRECT METHODS'
_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 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 1HHZ
_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 6
_refine_analyze.occupancy_sum_hydrogen 280.80
_refine_analyze.occupancy_sum_non_hydrogen 448.50
#
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.cycle_id LAST
_refine_hist.pdbx_number_atoms_protein 320
_refine_hist.pdbx_number_atoms_nucleic_acid 0
_refine_hist.pdbx_number_atoms_ligand 53
_refine_hist.number_atoms_solvent 95
_refine_hist.number_atoms_total 468
_refine_hist.d_res_high 0.99
_refine_hist.d_res_low 41.85
#
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 0.021 ? ? ? 'X-RAY DIFFRACTION' ?
s_angle_d 0.032 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_dist 0.027 ? ? ? 'X-RAY DIFFRACTION' ?
s_from_restr_planes 0.086 ? ? ? 'X-RAY DIFFRACTION' ?
s_zero_chiral_vol 0.084 ? ? ? 'X-RAY DIFFRACTION' ?
s_non_zero_chiral_vol 0.190 ? ? ? 'X-RAY DIFFRACTION' ?
s_anti_bump_dis_restr 0.085 ? ? ? 'X-RAY DIFFRACTION' ?
s_rigid_bond_adp_cmpnt 0.005 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_adp_cmpnt 0.027 ? ? ? 'X-RAY DIFFRACTION' ?
s_approx_iso_adps 0.126 ? ? ? 'X-RAY DIFFRACTION' ?
#
_pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_pdbx_refine.entry_id 1HHZ
_pdbx_refine.R_factor_all_no_cutoff 0.1083
_pdbx_refine.R_factor_obs_no_cutoff 0.1075
_pdbx_refine.free_R_factor_no_cutoff 0.1403
_pdbx_refine.free_R_error_no_cutoff ?
_pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5.1
_pdbx_refine.free_R_val_test_set_ct_no_cutoff 1529
_pdbx_refine.R_factor_all_4sig_cutoff 0.1031
_pdbx_refine.R_factor_obs_4sig_cutoff 0.1022
_pdbx_refine.free_R_factor_4sig_cutoff 0.1354
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.2
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 1413
_pdbx_refine.number_reflns_obs_4sig_cutoff 27252
#
loop_
_struct_ncs_oper.id
_struct_ncs_oper.code
_struct_ncs_oper.details
_struct_ncs_oper.matrix[1][1]
_struct_ncs_oper.matrix[1][2]
_struct_ncs_oper.matrix[1][3]
_struct_ncs_oper.matrix[2][1]
_struct_ncs_oper.matrix[2][2]
_struct_ncs_oper.matrix[2][3]
_struct_ncs_oper.matrix[3][1]
_struct_ncs_oper.matrix[3][2]
_struct_ncs_oper.matrix[3][3]
_struct_ncs_oper.vector[1]
_struct_ncs_oper.vector[2]
_struct_ncs_oper.vector[3]
1 given ? -0.818060 -0.282480 -0.500970 0.274980 0.572940 -0.772090 0.505130 -0.769380 -0.391030 69.43897 18.29514 12.76565
2 given ? -0.784650 0.257220 0.564060 0.349730 -0.567600 0.745340 0.511870 0.782100 0.355410 40.43910 -24.31767 -7.14059
#
_struct.entry_id 1HHZ
_struct.title 'Deglucobalhimycin in complex with cell wall pentapeptide'
_struct.pdbx_descriptor 'DEGLUCOBALHIMYCIN, CELL WALL PEPTIDE'
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 1HHZ
_struct_keywords.pdbx_keywords ANTIBIOTIC/PEPTIDE
_struct_keywords.text 'ANTIBIOTIC-PEPTIDE COMPLEX, GLYCOPEPTIDE, ANTIBIOTIC, CELL WALL PEPTIDE, BALHIMYCIN'
#
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 2 ?
E N N 2 ?
F N N 2 ?
G N N 3 ?
H N N 4 ?
I N N 4 ?
J N N 3 ?
K N N 4 ?
L N N 3 ?
M N N 4 ?
N N N 5 ?
O N N 5 ?
P N N 5 ?
Q N N 5 ?
R N N 5 ?
S N N 5 ?
#
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 MLU 1 C ? ? ? 1_555 A OMZ 2 N ? ? A MLU 1 A OMZ 2 1_555 ? ? ? ? ? ? ? 1.354 ? ?
covale2 covale both ? A OMZ 2 C ? ? ? 1_555 A ASN 3 N ? ? A OMZ 2 A ASN 3 1_555 ? ? ? ? ? ? ? 1.322 ? ?
covale3 covale none ? A OMZ 2 OH ? ? ? 1_555 A GHP 4 C3 ? ? A OMZ 2 A GHP 4 1_555 ? ? ? ? ? ? ? 1.387 ? ?
covale4 covale both ? A ASN 3 C ? ? ? 1_555 A GHP 4 N ? ? A ASN 3 A GHP 4 1_555 ? ? ? ? ? ? ? 1.338 ? ?
covale5 covale both ? A GHP 4 C ? ? ? 1_555 A GHP 5 N ? ? A GHP 4 A GHP 5 1_555 ? ? ? ? ? ? ? 1.340 ? ?
covale6 covale none ? A GHP 4 C5 ? ? ? 1_555 A OMY 6 OCZ ? ? A GHP 4 A OMY 6 1_555 ? ? ? ? ? ? ? 1.387 ? ?
covale7 covale both ? A GHP 5 C ? ? ? 1_555 A OMY 6 N ? ? A GHP 5 A OMY 6 1_555 ? ? ? ? ? ? ? 1.346 ? ?
covale8 covale none ? A GHP 5 C5 ? ? ? 1_555 A 3FG 7 CG1 ? ? A GHP 5 A 3FG 7 1_555 ? ? ? ? ? ? ? 1.489 ? ?
covale9 covale both ? A OMY 6 C ? ? ? 1_555 A 3FG 7 N ? ? A OMY 6 A 3FG 7 1_555 ? ? ? ? ? ? ? 1.351 ? ?
covale10 covale one ? A OMY 6 ODE ? ? ? 1_555 G DVC . C1 ? ? A OMY 6 A DVC 9 1_555 ? ? ? ? ? ? ? 1.424 ? ?
covale11 covale both ? B MLU 1 C ? ? ? 1_555 B OMZ 2 N ? ? B MLU 1 B OMZ 2 1_555 ? ? ? ? ? ? ? 1.375 ? ?
covale12 covale both ? B OMZ 2 C ? ? ? 1_555 B ASN 3 N ? ? B OMZ 2 B ASN 3 1_555 ? ? ? ? ? ? ? 1.304 ? ?
covale13 covale none ? B OMZ 2 OH ? ? ? 1_555 B GHP 4 C3 ? ? B OMZ 2 B GHP 4 1_555 ? ? ? ? ? ? ? 1.391 ? ?
covale14 covale both ? B ASN 3 C ? ? ? 1_555 B GHP 4 N ? ? B ASN 3 B GHP 4 1_555 ? ? ? ? ? ? ? 1.347 ? ?
covale15 covale both ? B GHP 4 C ? ? ? 1_555 B GHP 5 N ? ? B GHP 4 B GHP 5 1_555 ? ? ? ? ? ? ? 1.344 ? ?
covale16 covale none ? B GHP 4 C5 ? ? ? 1_555 B OMY 6 OCZ ? ? B GHP 4 B OMY 6 1_555 ? ? ? ? ? ? ? 1.399 ? ?
covale17 covale both ? B GHP 5 C ? ? ? 1_555 B OMY 6 N ? ? B GHP 5 B OMY 6 1_555 ? ? ? ? ? ? ? 1.317 ? ?
covale18 covale none ? B GHP 5 C5 ? ? ? 1_555 B 3FG 7 CG1 ? ? B GHP 5 B 3FG 7 1_555 ? ? ? ? ? ? ? 1.486 ? ?
covale19 covale both ? B OMY 6 C ? ? ? 1_555 B 3FG 7 N ? ? B OMY 6 B 3FG 7 1_555 ? ? ? ? ? ? ? 1.314 ? ?
covale20 covale one ? B OMY 6 ODE ? ? ? 1_555 J DVC . C1 ? ? B OMY 6 B DVC 9 1_555 ? ? ? ? ? ? ? 1.419 ? ?
covale21 covale both ? C MLU 1 C ? ? ? 1_555 C OMZ 2 N ? ? C MLU 1 C OMZ 2 1_555 ? ? ? ? ? ? ? 1.382 ? ?
covale22 covale both ? C OMZ 2 C ? ? ? 1_555 C ASN 3 N ? ? C OMZ 2 C ASN 3 1_555 ? ? ? ? ? ? ? 1.311 ? ?
covale23 covale none ? C OMZ 2 OH ? ? ? 1_555 C GHP 4 C3 ? ? C OMZ 2 C GHP 4 1_555 ? ? ? ? ? ? ? 1.408 ? ?
covale24 covale both ? C ASN 3 C ? ? ? 1_555 C GHP 4 N ? ? C ASN 3 C GHP 4 1_555 ? ? ? ? ? ? ? 1.337 ? ?
covale25 covale both ? C GHP 4 C ? ? ? 1_555 C GHP 5 N ? ? C GHP 4 C GHP 5 1_555 ? ? ? ? ? ? ? 1.332 ? ?
covale26 covale none ? C GHP 4 C5 ? ? ? 1_555 C OMY 6 OCZ ? ? C GHP 4 C OMY 6 1_555 ? ? ? ? ? ? ? 1.393 ? ?
covale27 covale both ? C GHP 5 C ? ? ? 1_555 C OMY 6 N ? ? C GHP 5 C OMY 6 1_555 ? ? ? ? ? ? ? 1.325 ? ?
covale28 covale none ? C GHP 5 C5 ? ? ? 1_555 C 3FG 7 CG1 ? ? C GHP 5 C 3FG 7 1_555 ? ? ? ? ? ? ? 1.498 ? ?
covale29 covale both ? C OMY 6 C ? ? ? 1_555 C 3FG 7 N ? ? C OMY 6 C 3FG 7 1_555 ? ? ? ? ? ? ? 1.332 ? ?
covale30 covale one ? C OMY 6 ODE ? ? ? 1_555 L DVC . C1 ? ? C OMY 6 C DVC 9 1_555 ? ? ? ? ? ? ? 1.392 ? ?
covale31 covale both ? D FGA 2 CD ? ? ? 1_555 D LYS 3 N ? ? D FGA 2 D LYS 3 1_555 ? ? ? ? ? ? ? 1.448 ? ?
covale32 covale both ? D LYS 3 C ? ? ? 1_555 D DAL 4 N ? ? D LYS 3 D DAL 4 1_555 ? ? ? ? ? ? ? 1.311 ? ?
covale33 covale both ? D DAL 4 C ? ? ? 1_555 D DAL 5 N ? ? D DAL 4 D DAL 5 1_555 ? ? ? ? ? ? ? 1.302 ? ?
covale34 covale both ? E DAL 1 C B ? ? 1_555 E FGA 2 N ? ? E DAL 1 E FGA 2 1_555 ? ? ? ? ? ? ? 1.451 ? ?
covale35 covale both ? E DAL 1 C A ? ? 1_555 E FGA 2 N ? ? E DAL 1 E FGA 2 1_555 ? ? ? ? ? ? ? 1.362 ? ?
covale36 covale both ? E FGA 2 CD ? ? ? 1_555 E LYS 3 N ? ? E FGA 2 E LYS 3 1_555 ? ? ? ? ? ? ? 1.326 ? ?
covale37 covale both ? E LYS 3 C ? ? ? 1_555 E DAL 4 N ? ? E LYS 3 E DAL 4 1_555 ? ? ? ? ? ? ? 1.322 ? ?
covale38 covale both ? E DAL 4 C ? ? ? 1_555 E DAL 5 N ? ? E DAL 4 E DAL 5 1_555 ? ? ? ? ? ? ? 1.326 ? ?
covale39 covale both ? F FGA 2 CD ? ? ? 1_555 F LYS 3 N ? ? F FGA 2 F LYS 3 1_555 ? ? ? ? ? ? ? 1.415 ? ?
covale40 covale both ? F LYS 3 C ? ? ? 1_555 F DAL 4 N ? ? F LYS 3 F DAL 4 1_555 ? ? ? ? ? ? ? 1.331 ? ?
covale41 covale both ? F DAL 4 C ? ? ? 1_555 F DAL 5 N ? ? F DAL 4 F DAL 5 1_555 ? ? ? ? ? ? ? 1.338 ? ?
#
_struct_conn_type.id covale
_struct_conn_type.criteria ?
_struct_conn_type.reference ?
#
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 GHP 5 A . ? GHP 5 A OMY 6 A ? OMY 6 A 1 10.12
2 GHP 5 B . ? GHP 5 B OMY 6 B ? OMY 6 B 1 -0.30
3 GHP 5 C . ? GHP 5 C OMY 6 C ? OMY 6 C 1 5.84
#
loop_
_struct_sheet.id
_struct_sheet.type
_struct_sheet.number_strands
_struct_sheet.details
AA ? 2 ?
BA ? 2 ?
#
loop_
_struct_sheet_order.sheet_id
_struct_sheet_order.range_id_1
_struct_sheet_order.range_id_2
_struct_sheet_order.offset
_struct_sheet_order.sense
AA 1 2 ? anti-parallel
BA 1 2 ? anti-parallel
#
loop_
_struct_sheet_range.sheet_id
_struct_sheet_range.id
_struct_sheet_range.beg_label_comp_id
_struct_sheet_range.beg_label_asym_id
_struct_sheet_range.beg_label_seq_id
_struct_sheet_range.pdbx_beg_PDB_ins_code
_struct_sheet_range.end_label_comp_id
_struct_sheet_range.end_label_asym_id
_struct_sheet_range.end_label_seq_id
_struct_sheet_range.pdbx_end_PDB_ins_code
_struct_sheet_range.beg_auth_comp_id
_struct_sheet_range.beg_auth_asym_id
_struct_sheet_range.beg_auth_seq_id
_struct_sheet_range.end_auth_comp_id
_struct_sheet_range.end_auth_asym_id
_struct_sheet_range.end_auth_seq_id
AA 1 GHP A 4 ? GHP A 5 ? GHP A 4 GHP A 5
AA 2 DAL D 4 ? DAL D 5 ? DAL D 4 DAL D 5
BA 1 GHP B 4 ? GHP B 5 ? GHP B 4 GHP B 5
BA 2 DAL E 4 ? DAL E 5 ? DAL E 4 DAL E 5
#
loop_
_pdbx_struct_sheet_hbond.sheet_id
_pdbx_struct_sheet_hbond.range_id_1
_pdbx_struct_sheet_hbond.range_id_2
_pdbx_struct_sheet_hbond.range_1_label_atom_id
_pdbx_struct_sheet_hbond.range_1_label_comp_id
_pdbx_struct_sheet_hbond.range_1_label_asym_id
_pdbx_struct_sheet_hbond.range_1_label_seq_id
_pdbx_struct_sheet_hbond.range_1_PDB_ins_code
_pdbx_struct_sheet_hbond.range_1_auth_atom_id
_pdbx_struct_sheet_hbond.range_1_auth_comp_id
_pdbx_struct_sheet_hbond.range_1_auth_asym_id
_pdbx_struct_sheet_hbond.range_1_auth_seq_id
_pdbx_struct_sheet_hbond.range_2_label_atom_id
_pdbx_struct_sheet_hbond.range_2_label_comp_id
_pdbx_struct_sheet_hbond.range_2_label_asym_id
_pdbx_struct_sheet_hbond.range_2_label_seq_id
_pdbx_struct_sheet_hbond.range_2_PDB_ins_code
_pdbx_struct_sheet_hbond.range_2_auth_atom_id
_pdbx_struct_sheet_hbond.range_2_auth_comp_id
_pdbx_struct_sheet_hbond.range_2_auth_asym_id
_pdbx_struct_sheet_hbond.range_2_auth_seq_id
AA 1 2 N GHP A 4 ? N GHP A 4 O DAL D 5 ? O DAL D 5
BA 1 2 N GHP B 4 ? N GHP B 4 O DAL E 5 ? O DAL E 5
#
_database_PDB_matrix.entry_id 1HHZ
_database_PDB_matrix.origx[1][1] 1.000000
_database_PDB_matrix.origx[1][2] 0.000000
_database_PDB_matrix.origx[1][3] 0.000000
_database_PDB_matrix.origx[2][1] 0.000000
_database_PDB_matrix.origx[2][2] 1.000000
_database_PDB_matrix.origx[2][3] 0.000000
_database_PDB_matrix.origx[3][1] 0.000000
_database_PDB_matrix.origx[3][2] 0.000000
_database_PDB_matrix.origx[3][3] 1.000000
_database_PDB_matrix.origx_vector[1] 0.00000
_database_PDB_matrix.origx_vector[2] 0.00000
_database_PDB_matrix.origx_vector[3] 0.00000
#
_atom_sites.entry_id 1HHZ
_atom_sites.fract_transf_matrix[1][1] 0.020708
_atom_sites.fract_transf_matrix[1][2] 0.011956
_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] 0.023912
_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] 0.025445
_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
#
loop_
_database_PDB_caveat.id
_database_PDB_caveat.text
1 'DAL E 1 HAS WRONG CHIRALITY AT ATOM CA'
2 'DAL E 1 C-ALPHA WRONG HAND DAL E 1 C-ALPHA WRONG HAND'
#
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 MLU 1 1 1 MLU MLU A . n
A 1 2 OMZ 2 2 2 OMZ OMZ A . n
A 1 3 ASN 3 3 3 ASN ASN A . n
A 1 4 GHP 4 4 4 GHP GHP A . n
A 1 5 GHP 5 5 5 GHP GHP A . n
A 1 6 OMY 6 6 6 OMY OMY A . n
A 1 7 3FG 7 7 7 3FG 3FG A . n
B 1 1 MLU 1 1 1 MLU MLU B . n
B 1 2 OMZ 2 2 2 OMZ OMZ B . n
B 1 3 ASN 3 3 3 ASN ASN B . n
B 1 4 GHP 4 4 4 GHP GHP B . n
B 1 5 GHP 5 5 5 GHP GHP B . n
B 1 6 OMY 6 6 6 OMY OMY B . n
B 1 7 3FG 7 7 7 3FG 3FG B . n
C 1 1 MLU 1 1 1 MLU MLU C . n
C 1 2 OMZ 2 2 2 OMZ OMZ C . n
C 1 3 ASN 3 3 3 ASN ASN C . n
C 1 4 GHP 4 4 4 GHP GHP C . n
C 1 5 GHP 5 5 5 GHP GHP C . n
C 1 6 OMY 6 6 6 OMY OMY C . n
C 1 7 3FG 7 7 7 3FG 3FG C . n
D 2 1 DAL 1 1 ? ? ? D . n
D 2 2 FGA 2 2 2 FGA FGA D . n
D 2 3 LYS 3 3 3 LYS LYS D . n
D 2 4 DAL 4 4 4 DAL DAL D . n
D 2 5 DAL 5 5 5 DAL DAL D . n
E 2 1 DAL 1 1 1 DAL DAL E . n
E 2 2 FGA 2 2 2 FGA FGA E . n
E 2 3 LYS 3 3 3 LYS LYS E . n
E 2 4 DAL 4 4 4 DAL DAL E . n
E 2 5 DAL 5 5 5 DAL DAL E . n
F 2 1 DAL 1 1 ? ? ? F . n
F 2 2 FGA 2 2 2 FGA FGA F . n
F 2 3 LYS 3 3 3 LYS LYS F . n
F 2 4 DAL 4 4 4 DAL DAL F . n
F 2 5 DAL 5 5 5 DAL DAL 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 DVC 1 9 9 DVC DVC A .
H 4 PGR 1 1001 1001 PGR PGR A .
I 4 PGR 1 1002 1002 PGR PGR A .
J 3 DVC 1 9 9 DVC DVC B .
K 4 PGR 1 1001 1001 PGR PGR B .
L 3 DVC 1 9 9 DVC DVC C .
M 4 PGR 1 1001 1001 PGR PGR C .
N 5 HOH 1 2001 2001 HOH HOH A .
N 5 HOH 2 2002 2002 HOH HOH A .
N 5 HOH 3 2003 2003 HOH HOH A .
N 5 HOH 4 2004 2004 HOH HOH A .
N 5 HOH 5 2005 2005 HOH HOH A .
N 5 HOH 6 2006 2006 HOH HOH A .
N 5 HOH 7 2007 2007 HOH HOH A .
N 5 HOH 8 2008 2008 HOH HOH A .
N 5 HOH 9 2009 2009 HOH HOH A .
N 5 HOH 10 2010 2010 HOH HOH A .
N 5 HOH 11 2011 2011 HOH HOH A .
N 5 HOH 12 2012 2012 HOH HOH A .
N 5 HOH 13 2013 2013 HOH HOH A .
N 5 HOH 14 2014 2014 HOH HOH A .
N 5 HOH 15 2015 2015 HOH HOH A .
N 5 HOH 16 2016 2016 HOH HOH A .
N 5 HOH 17 2017 2017 HOH HOH A .
N 5 HOH 18 2018 2018 HOH HOH A .
N 5 HOH 19 2019 2019 HOH HOH A .
N 5 HOH 20 2020 2020 HOH HOH A .
N 5 HOH 21 2021 2021 HOH HOH A .
N 5 HOH 22 2022 2022 HOH HOH A .
N 5 HOH 23 2023 2023 HOH HOH A .
N 5 HOH 24 2024 2024 HOH HOH A .
N 5 HOH 25 2025 2025 HOH HOH A .
O 5 HOH 1 2001 2001 HOH HOH B .
O 5 HOH 2 2002 2002 HOH HOH B .
O 5 HOH 3 2003 2003 HOH HOH B .
O 5 HOH 4 2004 2004 HOH HOH B .
O 5 HOH 5 2005 2005 HOH HOH B .
O 5 HOH 6 2006 2006 HOH HOH B .
O 5 HOH 7 2007 2007 HOH HOH B .
O 5 HOH 8 2008 2008 HOH HOH B .
O 5 HOH 9 2009 2009 HOH HOH B .
O 5 HOH 10 2010 2010 HOH HOH B .
O 5 HOH 11 2011 2011 HOH HOH B .
O 5 HOH 12 2012 2012 HOH HOH B .
O 5 HOH 13 2013 2013 HOH HOH B .
O 5 HOH 14 2014 2014 HOH HOH B .
O 5 HOH 15 2015 2015 HOH HOH B .
O 5 HOH 16 2016 2016 HOH HOH B .
O 5 HOH 17 2017 2017 HOH HOH B .
O 5 HOH 18 2018 2018 HOH HOH B .
O 5 HOH 19 2019 2019 HOH HOH B .
O 5 HOH 20 2020 2020 HOH HOH B .
O 5 HOH 21 2021 2021 HOH HOH B .
O 5 HOH 22 2022 2022 HOH HOH B .
O 5 HOH 23 2023 2023 HOH HOH B .
O 5 HOH 24 2024 2024 HOH HOH B .
O 5 HOH 25 2025 2025 HOH HOH B .
O 5 HOH 26 2026 2026 HOH HOH B .
O 5 HOH 27 2027 2027 HOH HOH B .
O 5 HOH 28 2028 2028 HOH HOH B .
O 5 HOH 29 2029 2029 HOH HOH B .
P 5 HOH 1 2001 2001 HOH HOH C .
P 5 HOH 2 2002 2002 HOH HOH C .
P 5 HOH 3 2003 2003 HOH HOH C .
P 5 HOH 4 2004 2004 HOH HOH C .
P 5 HOH 5 2005 2005 HOH HOH C .
P 5 HOH 6 2006 2006 HOH HOH C .
P 5 HOH 7 2007 2007 HOH HOH C .
P 5 HOH 8 2008 2008 HOH HOH C .
P 5 HOH 9 2009 2009 HOH HOH C .
P 5 HOH 10 2010 2010 HOH HOH C .
P 5 HOH 11 2011 2011 HOH HOH C .
P 5 HOH 12 2012 2012 HOH HOH C .
P 5 HOH 13 2013 2013 HOH HOH C .
P 5 HOH 14 2014 2014 HOH HOH C .
P 5 HOH 15 2015 2015 HOH HOH C .
P 5 HOH 16 2016 2016 HOH HOH C .
P 5 HOH 17 2017 2017 HOH HOH C .
P 5 HOH 18 2018 2018 HOH HOH C .
Q 5 HOH 1 2001 2001 HOH HOH D .
Q 5 HOH 2 2002 2002 HOH HOH D .
Q 5 HOH 3 2003 2003 HOH HOH D .
Q 5 HOH 4 2004 2004 HOH HOH D .
Q 5 HOH 5 2005 2005 HOH HOH D .
Q 5 HOH 6 2006 2006 HOH HOH D .
Q 5 HOH 7 2007 2007 HOH HOH D .
Q 5 HOH 8 2008 2008 HOH HOH D .
R 5 HOH 1 2001 2001 HOH HOH E .
R 5 HOH 2 2002 2002 HOH HOH E .
R 5 HOH 3 2003 2003 HOH HOH E .
R 5 HOH 4 2004 2004 HOH HOH E .
R 5 HOH 5 2005 2005 HOH HOH E .
R 5 HOH 6 2006 2006 HOH HOH E .
R 5 HOH 7 2007 2007 HOH HOH E .
R 5 HOH 8 2008 2008 HOH HOH E .
R 5 HOH 9 2009 2009 HOH HOH E .
R 5 HOH 10 2010 2010 HOH HOH E .
R 5 HOH 11 2011 2011 HOH HOH E .
S 5 HOH 1 2001 2001 HOH HOH F .
S 5 HOH 2 2002 2002 HOH HOH F .
S 5 HOH 3 2003 2003 HOH HOH F .
S 5 HOH 4 2004 2004 HOH HOH F .
#
_pdbx_molecule_features.prd_id PRD_000485
_pdbx_molecule_features.name Deglucobalhimycin
_pdbx_molecule_features.type Glycopeptide
_pdbx_molecule_features.class 'Antibiotic, Antimicrobial'
_pdbx_molecule_features.details
;DEGLUCOBALHIMYCIN LACKS THE D-GLUCOSE
COMPONENT OF BALHIMYCIN CONSISTING OF THE
TRICYCLIC HEPTAPEPTIDE AND (2R,4S,6S)-4-AZANYL-4,6-DIMETHYL-OXANE-2,5,5-TRIOL
ONLY LINKED TO RESIDUE 6.
;
#
loop_
_pdbx_molecule.instance_id
_pdbx_molecule.prd_id
_pdbx_molecule.asym_id
1 PRD_000485 A
1 PRD_000485 G
2 PRD_000485 B
2 PRD_000485 J
3 PRD_000485 C
3 PRD_000485 L
#
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 OMY 6 A OMY 6 ? TYR ?
2 B OMY 6 B OMY 6 ? TYR ?
3 C OMY 6 C OMY 6 ? TYR ?
#
loop_
_pdbx_struct_assembly.id
_pdbx_struct_assembly.details
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
1 software_defined_assembly PISA tetrameric 4
2 software_defined_assembly PISA tetrameric 4
#
loop_
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
_pdbx_struct_assembly_gen.asym_id_list
1 1 B,C,E,F,J,K,L,M,O,P,R,S
2 1,2 A,D,G,H,I,N,Q
#
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)' 1390 ?
1 MORE -6.4 ?
1 'SSA (A^2)' 3270 ?
2 'ABSA (A^2)' 2240 ?
2 MORE -15.8 ?
2 'SSA (A^2)' 2280 ?
#
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' 5_556 x-y,-y,-z+4/3 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000
0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 52.4000000000
#
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 2006 ? N HOH .
2 1 F HOH 2001 ? S HOH .
#
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 2003-09-05
2 'Structure model' 1 1 2011-07-13
3 'Structure model' 1 2 2012-07-25
4 'Structure model' 1 3 2012-11-30
5 'Structure model' 2 0 2019-04-24
6 'Structure model' 2 1 2019-07-10
7 'Structure model' 2 2 2019-07-24
8 'Structure model' 2 3 2019-10-09
9 'Structure model' 2 4 2020-07-29
#
loop_
_pdbx_audit_revision_details.ordinal
_pdbx_audit_revision_details.revision_ordinal
_pdbx_audit_revision_details.data_content_type
_pdbx_audit_revision_details.provider
_pdbx_audit_revision_details.type
_pdbx_audit_revision_details.description
_pdbx_audit_revision_details.details
1 1 'Structure model' repository 'Initial release' ? ?
2 9 'Structure model' repository Remediation 'Carbohydrate remediation' ?
#
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' 'Atomic model'
7 3 'Structure model' 'Derived calculations'
8 3 'Structure model' 'Non-polymer description'
9 3 'Structure model' Other
10 4 'Structure model' Other
11 5 'Structure model' Advisory
12 5 'Structure model' 'Data collection'
13 5 'Structure model' 'Derived calculations'
14 5 'Structure model' Other
15 5 'Structure model' 'Polymer sequence'
16 6 'Structure model' 'Data collection'
17 7 'Structure model' 'Data collection'
18 8 'Structure model' 'Data collection'
19 8 'Structure model' Other
20 8 'Structure model' 'Source and taxonomy'
21 9 'Structure model' Advisory
22 9 'Structure model' 'Data collection'
23 9 'Structure model' 'Derived calculations'
#
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' chem_comp
2 5 'Structure model' diffrn_source
3 5 'Structure model' entity_poly
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_validate_polymer_linkage
8 5 'Structure model' struct_conn
9 6 'Structure model' diffrn_source
10 7 'Structure model' chem_comp
11 7 'Structure model' diffrn_source
12 8 'Structure model' pdbx_database_status
13 8 'Structure model' pdbx_entity_src_syn
14 9 'Structure model' chem_comp
15 9 'Structure model' database_PDB_caveat
16 9 'Structure model' struct_conn
17 9 'Structure model' struct_site
18 9 'Structure model' struct_site_gen
#
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' '_chem_comp.type'
2 5 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
3 5 'Structure model' '_entity_poly.pdbx_seq_one_letter_code_can'
4 5 'Structure model' '_pdbx_database_status.recvd_author_approval'
5 5 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code'
6 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
7 6 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
8 7 'Structure model' '_chem_comp.type'
9 7 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
10 8 'Structure model' '_pdbx_database_status.status_code_sf'
11 9 'Structure model' '_chem_comp.type'
12 9 'Structure model' '_struct_conn.pdbx_dist_value'
13 9 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
14 9 'Structure model' '_struct_conn.ptnr1_label_atom_id'
15 9 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
16 9 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
17 9 'Structure model' '_struct_conn.ptnr2_label_asym_id'
18 9 'Structure model' '_struct_conn.ptnr2_label_atom_id'
19 9 'Structure model' '_struct_conn.ptnr2_label_comp_id'
20 9 'Structure model' '_struct_conn.ptnr2_label_seq_id'
#
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
SHELX phasing . ? 4
#
_pdbx_entry_details.entry_id 1HHZ
_pdbx_entry_details.compound_details
;BALHIMYCIN IS A TRICYCLIC GLYCOPEPTIDE. THE SCAFFOLD IS
A HEPTAPEPTIDE WITH THE CONFIGURATION D-D-L-D-D-L-L. IT IS
FURTHER GLYCOSYLATED BY TWO MONOSACCHARIDES: A D-GLUCOSE
AND A 4-OXO-VANCOSAMINE.
HERE, DEGLUCOBALHIMYCIN IS REPRESENTED GROUPING TOGETHER THE
SEQUENCE (SEQRES) AND ONE LIGAND (HET) DVC.
GROUP: 1
NAME: DEGLUCOBALHIMYCIN
CHAIN: A, B, C
COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 7
COMPONENT_2: SUGAR RESIDUES 9
DESCRIPTION: DEGLUCOBALHIMYCIN LACKS THE D-GLUCOSE
COMPONENT OF BALHIMYCIN CONSISTING OF THE
TRICYCLIC HEPTAPEPTIDE AND 4-OXO-VANCOSAMINE
ONLY, LINKED TO RESIDUE 6.
;
_pdbx_entry_details.source_details ?
_pdbx_entry_details.nonpolymer_details ?
_pdbx_entry_details.sequence_details ?
_pdbx_entry_details.has_ligand_of_interest ?
#
_pdbx_validate_torsion.id 1
_pdbx_validate_torsion.PDB_model_num 1
_pdbx_validate_torsion.auth_comp_id ASN
_pdbx_validate_torsion.auth_asym_id A
_pdbx_validate_torsion.auth_seq_id 3
_pdbx_validate_torsion.PDB_ins_code ?
_pdbx_validate_torsion.label_alt_id ?
_pdbx_validate_torsion.phi -120.78
_pdbx_validate_torsion.psi -56.01
#
loop_
_pdbx_validate_chiral.id
_pdbx_validate_chiral.PDB_model_num
_pdbx_validate_chiral.auth_atom_id
_pdbx_validate_chiral.label_alt_id
_pdbx_validate_chiral.auth_asym_id
_pdbx_validate_chiral.auth_comp_id
_pdbx_validate_chiral.auth_seq_id
_pdbx_validate_chiral.PDB_ins_code
_pdbx_validate_chiral.details
_pdbx_validate_chiral.omega
1 1 CA A E DAL 1 ? 'WRONG HAND' .
2 1 CA B E DAL 1 ? 'WRONG HAND' .
#
_pdbx_distant_solvent_atoms.id 1
_pdbx_distant_solvent_atoms.PDB_model_num 1
_pdbx_distant_solvent_atoms.auth_atom_id O
_pdbx_distant_solvent_atoms.label_alt_id ?
_pdbx_distant_solvent_atoms.auth_asym_id B
_pdbx_distant_solvent_atoms.auth_comp_id HOH
_pdbx_distant_solvent_atoms.auth_seq_id 2004
_pdbx_distant_solvent_atoms.PDB_ins_code ?
_pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 6.01
_pdbx_distant_solvent_atoms.neighbor_ligand_distance .
#
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 D FGA 2 ? N ? D FGA 2 N
2 1 Y 1 D FGA 2 ? CA ? D FGA 2 CA
3 1 Y 1 D FGA 2 ? C ? D FGA 2 C
4 1 Y 1 D FGA 2 ? O ? D FGA 2 O
5 1 Y 1 D FGA 2 ? CB ? D FGA 2 CB
6 1 Y 1 D LYS 3 ? CD ? D LYS 3 CD
7 1 Y 1 D LYS 3 ? CE ? D LYS 3 CE
8 1 Y 1 D LYS 3 ? NZ ? D LYS 3 NZ
9 1 Y 1 F FGA 2 ? C ? F FGA 2 C
10 1 Y 1 F FGA 2 ? O ? F FGA 2 O
#
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 D DAL 1 ? D DAL 1
2 1 Y 1 F DAL 1 ? F DAL 1
#
loop_
_pdbx_entity_nonpoly.entity_id
_pdbx_entity_nonpoly.name
_pdbx_entity_nonpoly.comp_id
3 '(2R,4S,6S)-4-azanyl-4,6-dimethyl-oxane-2,5,5-triol' DVC
4 R-1,2-PROPANEDIOL PGR
5 water HOH
#