data_1HHF
#
_entry.id 1HHF
#
_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 1HHF
PDBE EBI-5729
WWPDB D_1290005729
#
loop_
_pdbx_database_related.db_name
_pdbx_database_related.db_id
_pdbx_database_related.content_type
_pdbx_database_related.details
PDB 1HHA unspecified 'CRYSTAL STRUCTURE OF DECAPLANIN - SPACE GROUP P6122'
PDB 1HHC unspecified 'CRYSTAL STRUCTURE OF DECAPLANIN - SPACE GROUP P21, SECOND FORM'
PDB 1HHF unspecified 'CRYSTAL STRUCTURE OF DECAPLANIN - SPACE GROUP P6122, SECOND FORM'
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 1HHF
_pdbx_database_status.deposit_site PDBE
_pdbx_database_status.process_site PDBE
_pdbx_database_status.SG_entry .
_pdbx_database_status.recvd_initial_deposition_date 2000-12-22
_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
'Vertessy, L.' 2
'Sheldrick, G.M.' 3
'Dauter, Z.' 4
'Dauter, M.' 5
#
_citation.id primary
_citation.title 'Structures of Four Crystal Forms of Decaplanin'
_citation.journal_abbrev Helv.Chim.Acta
_citation.journal_volume 86
_citation.page_first 1478
_citation.page_last ?
_citation.year 2003
_citation.journal_id_ASTM HCACAV
_citation.country SZ
_citation.journal_id_ISSN 0018-019X
_citation.journal_id_CSD 0010
_citation.book_publisher ?
_citation.pdbx_database_id_PubMed ?
_citation.pdbx_database_id_DOI 10.1002/HLCA.200390131
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Lehmann, C.' 1 ?
primary 'Debreczeni, J.E.' 2 ?
primary 'Bunkoczi, G.' 3 ?
primary 'Dauter, M.' 4 ?
primary 'Dauter, Z.' 5 ?
primary 'Vertesy, L.' 6 ?
primary 'Sheldrick, G.M.' 7 ?
#
_cell.entry_id 1HHF
_cell.length_a 60.101
_cell.length_b 60.101
_cell.length_c 131.387
_cell.angle_alpha 90.00
_cell.angle_beta 90.00
_cell.angle_gamma 120.00
_cell.Z_PDB 48
_cell.pdbx_unique_axis ?
#
_symmetry.entry_id 1HHF
_symmetry.space_group_name_H-M 'P 61 2 2'
_symmetry.pdbx_full_space_group_name_H-M ?
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 178
#
loop_
_entity.id
_entity.type
_entity.src_method
_entity.pdbx_description
_entity.formula_weight
_entity.pdbx_number_of_molecules
_entity.pdbx_ec
_entity.pdbx_mutation
_entity.pdbx_fragment
_entity.details
1 polymer nat DECAPLANIN 1115.532 4 ? ? ? ?
2 branched man 'alpha-L-rhamnopyranose-(1-2)-beta-D-glucopyranose' 326.297 4 ? ? ? ?
3 non-polymer man 4-epi-vancosamine 161.199 4 ? ? ? ?
4 non-polymer syn 'CHLORIDE ION' 35.453 4 ? ? ? ?
5 non-polymer syn 'PHOSPHATE ION' 94.971 2 ? ? ? ?
6 water nat water 18.015 94 ? ? ? ?
#
_entity_name_com.entity_id 1
_entity_name_com.name M86-1410
#
_entity_poly.entity_id 1
_entity_poly.type 'polypeptide(L)'
_entity_poly.nstd_linkage no
_entity_poly.nstd_monomer yes
_entity_poly.pdbx_seq_one_letter_code '(MLU)(OMZ)N(GHP)(GHP)(OMX)(3FG)'
_entity_poly.pdbx_seq_one_letter_code_can XXNGGYX
_entity_poly.pdbx_strand_id A,B,C,D
_entity_poly.pdbx_target_identifier ?
#
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 OMX n
1 7 3FG n
#
_entity_src_nat.entity_id 1
_entity_src_nat.pdbx_src_id 1
_entity_src_nat.pdbx_alt_source_flag sample
_entity_src_nat.pdbx_beg_seq_num ?
_entity_src_nat.pdbx_end_seq_num ?
_entity_src_nat.common_name ?
_entity_src_nat.pdbx_organism_scientific 'UNCULTURED ACTINOMYCETE'
_entity_src_nat.pdbx_ncbi_taxonomy_id 100235
_entity_src_nat.genus ?
_entity_src_nat.species ?
_entity_src_nat.strain 'DSM 4763'
_entity_src_nat.tissue ?
_entity_src_nat.tissue_fraction ?
_entity_src_nat.pdbx_secretion ?
_entity_src_nat.pdbx_fragment ?
_entity_src_nat.pdbx_variant ?
_entity_src_nat.pdbx_cell_line ?
_entity_src_nat.pdbx_atcc ?
_entity_src_nat.pdbx_cellular_location ?
_entity_src_nat.pdbx_organ ?
_entity_src_nat.pdbx_organelle ?
_entity_src_nat.pdbx_cell ?
_entity_src_nat.pdbx_plasmid_name ?
_entity_src_nat.pdbx_plasmid_details ?
_entity_src_nat.details 'CULTURE HIL Y-86, 36910'
#
_struct_ref.id 1
_struct_ref.db_name NOR
_struct_ref.db_code NOR00692
_struct_ref.entity_id 1
_struct_ref.pdbx_seq_one_letter_code ?
_struct_ref.pdbx_align_begin ?
_struct_ref.pdbx_db_accession NOR00692
_struct_ref.pdbx_db_isoform ?
#
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 1HHF A 1 ? 7 ? NOR00692 1 ? 7 ? 1 7
2 1 1HHF B 1 ? 7 ? NOR00692 1 ? 7 ? 1 7
3 1 1HHF C 1 ? 7 ? NOR00692 1 ? 7 ? 1 7
4 1 1HHF D 1 ? 7 ? NOR00692 1 ? 7 ? 1 7
#
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
BGC 'D-saccharide, beta linking' . beta-D-glucopyranose ? 'C6 H12 O6' 180.156
CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453
ERE 'L-saccharide, alpha linking' . 4-epi-vancosamine 4-EPI-VANCOSAMINE 'C7 H15 N O3' 161.199
GHP 'D-peptide linking' . '(2R)-amino(4-hydroxyphenyl)ethanoic acid' ? 'C8 H9 N O3' 167.162
HOH non-polymer . WATER ? 'H2 O' 18.015
MLU 'D-peptide linking' . N-methyl-D-leucine ? 'C7 H15 N O2' 145.199
OMX 'L-peptide linking' n '(betaR)-beta-hydroxy-L-Tyrosine' ? 'C9 H11 N O4' 197.188
OMZ 'D-peptide linking' . '(betaR)-3-CHLORO-BETA-HYDROXY-D-TYROSINE' ? 'C9 H10 Cl N O4' 231.633
PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971
RAM 'L-saccharide, alpha linking' . alpha-L-rhamnopyranose ? 'C6 H12 O5' 164.156
#
_exptl.entry_id 1HHF
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 5.38
_exptl_crystal.density_percent_sol 69.1
_exptl_crystal.description 'SAS OF CHLORINE AT 1.5A'
#
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.method ?
_exptl_crystal_grow.temp ?
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.pH 8.50
_exptl_crystal_grow.pdbx_pH_range ?
_exptl_crystal_grow.pdbx_details '0.1M TRIS/HCL, PH=8.5, 2M NH4H2PO4, pH 8.50'
#
_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 1998-09-15
_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 0.83450
_diffrn_radiation_wavelength.wt 1.0
#
_diffrn_source.diffrn_id 1
_diffrn_source.source SYNCHROTRON
_diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE BW7B'
_diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG'
_diffrn_source.pdbx_synchrotron_beamline BW7B
_diffrn_source.pdbx_wavelength 0.83450
_diffrn_source.pdbx_wavelength_list ?
#
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.entry_id 1HHF
_reflns.observed_criterion_sigma_I ?
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 48.390
_reflns.d_resolution_high 1.470
_reflns.number_obs 24558
_reflns.number_all ?
_reflns.percent_possible_obs 99.1
_reflns.pdbx_Rmerge_I_obs 0.05100
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI 18.7400
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy 12.000
#
_reflns_shell.pdbx_diffrn_id 1
_reflns_shell.pdbx_ordinal 1
_reflns_shell.d_res_high 1.47
_reflns_shell.d_res_low 1.60
_reflns_shell.percent_possible_all 99.6
_reflns_shell.Rmerge_I_obs 0.35000
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs 5.960
_reflns_shell.pdbx_redundancy 11.00
#
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.entry_id 1HHF
_refine.pdbx_diffrn_id 1
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.ls_number_reflns_obs ?
_refine.ls_number_reflns_all 24558
_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 48.39
_refine.ls_d_res_high 1.47
_refine.ls_percent_reflns_obs 99.1
_refine.ls_R_factor_obs 0.1800
_refine.ls_R_factor_all 0.1787
_refine.ls_R_factor_R_work ?
_refine.ls_R_factor_R_free 0.2111
_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 1244
_refine.ls_number_parameters 4895
_refine.ls_number_restraints 7785
_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 '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 OTHER
_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 1HHF
_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 348.00
_refine_analyze.occupancy_sum_non_hydrogen 541.50
#
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.cycle_id LAST
_refine_hist.pdbx_number_atoms_protein 316
_refine_hist.pdbx_number_atoms_nucleic_acid 0
_refine_hist.pdbx_number_atoms_ligand 138
_refine_hist.number_atoms_solvent 94
_refine_hist.number_atoms_total 548
_refine_hist.d_res_high 1.47
_refine_hist.d_res_low 48.39
#
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 0.010 ? ? ? 'X-RAY DIFFRACTION' ?
s_angle_d 0.027 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_dist 0.017 ? ? ? 'X-RAY DIFFRACTION' ?
s_from_restr_planes 0.063 ? ? ? 'X-RAY DIFFRACTION' ?
s_zero_chiral_vol 0.095 ? ? ? 'X-RAY DIFFRACTION' ?
s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ?
s_anti_bump_dis_restr 0.053 ? ? ? 'X-RAY DIFFRACTION' ?
s_rigid_bond_adp_cmpnt 0.004 ? ? ? 'X-RAY DIFFRACTION' ?
s_similar_adp_cmpnt 0.027 ? ? ? 'X-RAY DIFFRACTION' ?
s_approx_iso_adps 0.089 ? ? ? 'X-RAY DIFFRACTION' ?
#
_pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_pdbx_refine.entry_id 1HHF
_pdbx_refine.R_factor_all_no_cutoff 0.1787
_pdbx_refine.R_factor_obs_no_cutoff 0.1800
_pdbx_refine.free_R_factor_no_cutoff 0.2111
_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 1244
_pdbx_refine.R_factor_all_4sig_cutoff 0.1729
_pdbx_refine.R_factor_obs_4sig_cutoff 0.1740
_pdbx_refine.free_R_factor_4sig_cutoff 0.2059
_pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.1
_pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 1134
_pdbx_refine.number_reflns_obs_4sig_cutoff 21989
#
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 ? -0.101480 -0.989450 0.103360 -0.993860 0.096220 -0.054690 0.044170 -0.108270 -0.993140 65.61858 62.96038 48.16151
2 given ? -0.101480 -0.989450 0.103360 -0.993860 0.096220 -0.054690 0.044170 -0.108270 -0.993140 65.61858 62.96038 48.16151
3 given ? 0.839660 0.542960 -0.012650 -0.538600 0.835470 0.109070 0.069790 -0.084770 0.993950 8.49048 30.28199 -12.53756
#
_struct.entry_id 1HHF
_struct.title 'Decaplanin second P6122-Form'
_struct.pdbx_descriptor DECAPLANIN
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 1HHF
_struct_keywords.pdbx_keywords ANTIBIOTIC
_struct_keywords.text 'ANTIBIOTIC, GLYCOPEPTIDE'
#
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 2 ?
H N N 2 ?
I N N 3 ?
J N N 4 ?
K N N 4 ?
L N N 3 ?
M N N 3 ?
N N N 4 ?
O N N 4 ?
P N N 5 ?
Q N N 5 ?
R N N 3 ?
S N N 6 ?
T N N 6 ?
U N N 6 ?
V N N 6 ?
#
_struct_biol.id 1
#
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 ? ? ? ? ? ? ? 1.329 ? ?
covale2 covale both ? A OMZ 2 C ? ? ? 1_555 A ASN 3 N ? ? A OMZ 2 A ASN 3 1_555 ? ? ? ? ? ? ? 1.354 ? ?
covale3 covale none ? A OMZ 2 OH ? ? ? 1_555 A GHP 4 C5 ? ? A OMZ 2 A GHP 4 1_555 ? ? ? ? ? ? ? 1.385 ? ?
covale4 covale both ? A ASN 3 C ? ? ? 1_555 A GHP 4 N ? ? A ASN 3 A GHP 4 1_555 ? ? ? ? ? ? ? 1.324 ? ?
covale5 covale both ? A GHP 4 C ? ? ? 1_555 A GHP 5 N ? ? A GHP 4 A GHP 5 1_555 ? ? ? ? ? ? ? 1.352 ? ?
covale6 covale none ? A GHP 4 C3 ? ? ? 1_555 A OMX 6 OH ? ? A GHP 4 A OMX 6 1_555 ? ? ? ? ? ? ? 1.387 ? ?
covale7 covale one ? A GHP 4 O4 ? ? ? 1_555 E BGC . C1 ? ? A GHP 4 E BGC 1 1_555 ? ? ? ? ? ? ? 1.418 ? ?
covale8 covale both ? A GHP 5 C ? ? ? 1_555 A OMX 6 N ? ? A GHP 5 A OMX 6 1_555 ? ? ? ? ? ? ? 1.325 ? ?
covale9 covale none ? A GHP 5 C3 ? ? ? 1_555 A 3FG 7 CG1 ? ? A GHP 5 A 3FG 7 1_555 ? ? ? ? ? ? ? 1.488 ? ?
covale10 covale both ? A OMX 6 C ? ? ? 1_555 A 3FG 7 N ? ? A OMX 6 A 3FG 7 1_555 ? ? ? ? ? ? ? 1.361 ? ?
covale11 covale one ? A OMX 6 OC ? ? ? 1_555 I ERE . C1 ? ? A OMX 6 A ERE 8 1_555 ? ? ? ? ? ? ? 1.416 ? ?
covale12 covale both ? B MLU 1 C ? ? ? 1_555 B OMZ 2 N ? ? B MLU 1 B OMZ 2 1_555 ? ? ? ? ? ? ? 1.331 ? ?
covale13 covale both ? B OMZ 2 C ? ? ? 1_555 B ASN 3 N ? ? B OMZ 2 B ASN 3 1_555 ? ? ? ? ? ? ? 1.353 ? ?
covale14 covale none ? B OMZ 2 OH ? ? ? 1_555 B GHP 4 C5 ? ? B OMZ 2 B GHP 4 1_555 ? ? ? ? ? ? ? 1.388 ? ?
covale15 covale both ? B ASN 3 C ? ? ? 1_555 B GHP 4 N ? ? B ASN 3 B GHP 4 1_555 ? ? ? ? ? ? ? 1.323 ? ?
covale16 covale both ? B GHP 4 C ? ? ? 1_555 B GHP 5 N ? ? B GHP 4 B GHP 5 1_555 ? ? ? ? ? ? ? 1.353 ? ?
covale17 covale none ? B GHP 4 C3 ? ? ? 1_555 B OMX 6 OH ? ? B GHP 4 B OMX 6 1_555 ? ? ? ? ? ? ? 1.392 ? ?
covale18 covale one ? B GHP 4 O4 ? ? ? 1_555 F BGC . C1 ? ? B GHP 4 F BGC 1 1_555 ? ? ? ? ? ? ? 1.419 ? ?
covale19 covale both ? B GHP 5 C ? ? ? 1_555 B OMX 6 N ? ? B GHP 5 B OMX 6 1_555 ? ? ? ? ? ? ? 1.330 ? ?
covale20 covale none ? B GHP 5 C3 ? ? ? 1_555 B 3FG 7 CG1 ? ? B GHP 5 B 3FG 7 1_555 ? ? ? ? ? ? ? 1.490 ? ?
covale21 covale both ? B OMX 6 C ? ? ? 1_555 B 3FG 7 N ? ? B OMX 6 B 3FG 7 1_555 ? ? ? ? ? ? ? 1.369 ? ?
covale22 covale one ? B OMX 6 OC ? ? ? 1_555 L ERE . C1 ? ? B OMX 6 B ERE 8 1_555 ? ? ? ? ? ? ? 1.423 ? ?
covale23 covale both ? C MLU 1 C ? ? ? 1_555 C OMZ 2 N ? ? C MLU 1 C OMZ 2 1_555 ? ? ? ? ? ? ? 1.329 ? ?
covale24 covale both ? C OMZ 2 C ? ? ? 1_555 C ASN 3 N ? ? C OMZ 2 C ASN 3 1_555 ? ? ? ? ? ? ? 1.350 ? ?
covale25 covale none ? C OMZ 2 OH ? ? ? 1_555 C GHP 4 C5 ? ? C OMZ 2 C GHP 4 1_555 ? ? ? ? ? ? ? 1.389 ? ?
covale26 covale both ? C ASN 3 C ? ? ? 1_555 C GHP 4 N ? ? C ASN 3 C GHP 4 1_555 ? ? ? ? ? ? ? 1.324 ? ?
covale27 covale both ? C GHP 4 C ? ? ? 1_555 C GHP 5 N ? ? C GHP 4 C GHP 5 1_555 ? ? ? ? ? ? ? 1.348 ? ?
covale28 covale none ? C GHP 4 C3 ? ? ? 1_555 C OMX 6 OH ? ? C GHP 4 C OMX 6 1_555 ? ? ? ? ? ? ? 1.396 ? ?
covale29 covale one ? C GHP 4 O4 ? ? ? 1_555 G BGC . C1 ? ? C GHP 4 G BGC 1 1_555 ? ? ? ? ? ? ? 1.399 ? ?
covale30 covale both ? C GHP 5 C ? ? ? 1_555 C OMX 6 N ? ? C GHP 5 C OMX 6 1_555 ? ? ? ? ? ? ? 1.331 ? ?
covale31 covale none ? C GHP 5 C3 ? ? ? 1_555 C 3FG 7 CG1 ? ? C GHP 5 C 3FG 7 1_555 ? ? ? ? ? ? ? 1.491 ? ?
covale32 covale both ? C OMX 6 C ? ? ? 1_555 C 3FG 7 N ? ? C OMX 6 C 3FG 7 1_555 ? ? ? ? ? ? ? 1.359 ? ?
covale33 covale one ? C OMX 6 OC ? ? ? 1_555 M ERE . C1 ? ? C OMX 6 C ERE 8 1_555 ? ? ? ? ? ? ? 1.400 ? ?
covale34 covale both ? D MLU 1 C ? ? ? 1_555 D OMZ 2 N ? ? D MLU 1 D OMZ 2 1_555 ? ? ? ? ? ? ? 1.324 ? ?
covale35 covale both ? D OMZ 2 C ? ? ? 1_555 D ASN 3 N ? ? D OMZ 2 D ASN 3 1_555 ? ? ? ? ? ? ? 1.335 ? ?
covale36 covale none ? D OMZ 2 OH ? ? ? 1_555 D GHP 4 C5 ? ? D OMZ 2 D GHP 4 1_555 ? ? ? ? ? ? ? 1.391 ? ?
covale37 covale both ? D ASN 3 C ? ? ? 1_555 D GHP 4 N ? ? D ASN 3 D GHP 4 1_555 ? ? ? ? ? ? ? 1.327 ? ?
covale38 covale both ? D GHP 4 C ? ? ? 1_555 D GHP 5 N ? ? D GHP 4 D GHP 5 1_555 ? ? ? ? ? ? ? 1.358 ? ?
covale39 covale none ? D GHP 4 C3 ? ? ? 1_555 D OMX 6 OH ? ? D GHP 4 D OMX 6 1_555 ? ? ? ? ? ? ? 1.386 ? ?
covale40 covale one ? D GHP 4 O4 ? ? ? 1_555 H BGC . C1 ? ? D GHP 4 H BGC 1 1_555 ? ? ? ? ? ? ? 1.414 ? ?
covale41 covale both ? D GHP 5 C ? ? ? 1_555 D OMX 6 N ? ? D GHP 5 D OMX 6 1_555 ? ? ? ? ? ? ? 1.330 ? ?
covale42 covale none ? D GHP 5 C3 ? ? ? 1_555 D 3FG 7 CG1 ? ? D GHP 5 D 3FG 7 1_555 ? ? ? ? ? ? ? 1.484 ? ?
covale43 covale both ? D OMX 6 C ? ? ? 1_555 D 3FG 7 N ? ? D OMX 6 D 3FG 7 1_555 ? ? ? ? ? ? ? 1.359 ? ?
covale44 covale one ? D OMX 6 OC ? ? ? 1_555 R ERE . C1 ? ? D OMX 6 D ERE 8 1_555 ? ? ? ? ? ? ? 1.408 ? ?
covale45 covale one ? E BGC . O2 ? ? ? 1_555 E RAM . C1 ? ? E BGC 1 E RAM 2 1_555 ? ? ? ? ? ? ? 1.428 ? ?
covale46 covale one ? F BGC . O2 ? ? ? 1_555 F RAM . C1 ? ? F BGC 1 F RAM 2 1_555 ? ? ? ? ? ? ? 1.433 ? ?
covale47 covale one ? G BGC . O2 ? ? ? 1_555 G RAM . C1 ? ? G BGC 1 G RAM 2 1_555 ? ? ? ? ? ? ? 1.426 ? ?
covale48 covale one ? H BGC . O2 ? ? ? 1_555 H RAM . C1 ? ? H BGC 1 H RAM 2 1_555 ? ? ? ? ? ? ? 1.427 ? ?
#
_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 OMX 6 A ? OMX 6 A 1 6.38
2 GHP 5 B . ? GHP 5 B OMX 6 B ? OMX 6 B 1 5.00
3 GHP 5 C . ? GHP 5 C OMX 6 C ? OMX 6 C 1 4.37
4 GHP 5 D . ? GHP 5 D OMX 6 D ? OMX 6 D 1 10.32
#
_database_PDB_matrix.entry_id 1HHF
_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 1HHF
_atom_sites.fract_transf_matrix[1][1] 0.016639
_atom_sites.fract_transf_matrix[1][2] 0.009606
_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] 0.019213
_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] 0.007611
_atom_sites.fract_transf_vector[1] 0.00000
_atom_sites.fract_transf_vector[2] 0.00000
_atom_sites.fract_transf_vector[3] 0.00000
#
loop_
_atom_type.symbol
C
CL
N
O
P
#
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 OMX 6 6 6 OMX OMX 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 OMX 6 6 6 OMX OMX 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 OMX 6 6 6 OMX OMX C . n
C 1 7 3FG 7 7 7 3FG 3FG C . n
D 1 1 MLU 1 1 1 MLU MLU D . n
D 1 2 OMZ 2 2 2 OMZ OMZ D . n
D 1 3 ASN 3 3 3 ASN ASN D . n
D 1 4 GHP 4 4 4 GHP GHP D . n
D 1 5 GHP 5 5 5 GHP GHP D . n
D 1 6 OMX 6 6 6 OMX OMX D . n
D 1 7 3FG 7 7 7 3FG 3FG D . n
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.pdb_ins_code
I 3 ERE 1 8 8 ERE ERE A .
J 4 CL 1 1001 1001 CL CL A .
K 4 CL 1 1002 1002 CL CL A .
L 3 ERE 1 8 8 ERE ERE B .
M 3 ERE 1 8 8 ERE ERE C .
N 4 CL 1 1003 1003 CL CL C .
O 4 CL 1 1004 1004 CL CL C .
P 5 PO4 1 1005 1005 PO4 PO4 C .
Q 5 PO4 1 1006 1006 PO4 PO4 C .
R 3 ERE 1 8 8 ERE ERE D .
S 6 HOH 1 2001 2001 HOH HOH A .
S 6 HOH 2 2002 2002 HOH HOH A .
S 6 HOH 3 2003 2003 HOH HOH A .
S 6 HOH 4 2004 2004 HOH HOH A .
S 6 HOH 5 2005 2005 HOH HOH A .
S 6 HOH 6 2006 2006 HOH HOH A .
S 6 HOH 7 2007 2007 HOH HOH A .
S 6 HOH 8 2008 2008 HOH HOH A .
S 6 HOH 9 2009 2009 HOH HOH A .
S 6 HOH 10 2010 2010 HOH HOH A .
S 6 HOH 11 2011 2011 HOH HOH A .
S 6 HOH 12 2012 2012 HOH HOH A .
S 6 HOH 13 2013 2013 HOH HOH A .
S 6 HOH 14 2014 2014 HOH HOH A .
S 6 HOH 15 2015 2015 HOH HOH A .
S 6 HOH 16 2016 2016 HOH HOH A .
S 6 HOH 17 2017 2017 HOH HOH A .
S 6 HOH 18 2018 2018 HOH HOH A .
S 6 HOH 19 2019 2019 HOH HOH A .
S 6 HOH 20 2020 2020 HOH HOH A .
S 6 HOH 21 2021 2021 HOH HOH A .
S 6 HOH 22 2022 2022 HOH HOH A .
S 6 HOH 23 2023 2023 HOH HOH A .
S 6 HOH 24 2024 2024 HOH HOH A .
S 6 HOH 25 2025 2025 HOH HOH A .
S 6 HOH 26 2026 2026 HOH HOH A .
S 6 HOH 27 2027 2027 HOH HOH A .
S 6 HOH 28 2028 2028 HOH HOH A .
S 6 HOH 29 2029 2029 HOH HOH A .
S 6 HOH 30 2030 2030 HOH HOH A .
S 6 HOH 31 2031 2031 HOH HOH A .
S 6 HOH 32 2032 2032 HOH HOH A .
T 6 HOH 1 2001 2001 HOH HOH B .
T 6 HOH 2 2002 2002 HOH HOH B .
T 6 HOH 3 2003 2003 HOH HOH B .
T 6 HOH 4 2004 2004 HOH HOH B .
T 6 HOH 5 2005 2005 HOH HOH B .
T 6 HOH 6 2006 2006 HOH HOH B .
T 6 HOH 7 2007 2007 HOH HOH B .
T 6 HOH 8 2008 2008 HOH HOH B .
T 6 HOH 9 2009 2009 HOH HOH B .
T 6 HOH 10 2010 2010 HOH HOH B .
T 6 HOH 11 2011 2011 HOH HOH B .
T 6 HOH 12 2012 2012 HOH HOH B .
T 6 HOH 13 2013 2013 HOH HOH B .
T 6 HOH 14 2014 2014 HOH HOH B .
T 6 HOH 15 2015 2015 HOH HOH B .
T 6 HOH 16 2016 2016 HOH HOH B .
U 6 HOH 1 2001 2001 HOH HOH C .
U 6 HOH 2 2002 2002 HOH HOH C .
U 6 HOH 3 2003 2003 HOH HOH C .
U 6 HOH 4 2004 2004 HOH HOH C .
U 6 HOH 5 2005 2005 HOH HOH C .
U 6 HOH 6 2006 2006 HOH HOH C .
U 6 HOH 7 2007 2007 HOH HOH C .
U 6 HOH 8 2008 2008 HOH HOH C .
U 6 HOH 9 2009 2009 HOH HOH C .
U 6 HOH 10 2010 2010 HOH HOH C .
U 6 HOH 11 2011 2011 HOH HOH C .
U 6 HOH 12 2012 2012 HOH HOH C .
U 6 HOH 13 2013 2013 HOH HOH C .
U 6 HOH 14 2014 2014 HOH HOH C .
U 6 HOH 15 2015 2015 HOH HOH C .
U 6 HOH 16 2016 2016 HOH HOH C .
U 6 HOH 17 2017 2017 HOH HOH C .
U 6 HOH 18 2018 2018 HOH HOH C .
U 6 HOH 19 2019 2019 HOH HOH C .
U 6 HOH 20 2020 2020 HOH HOH C .
V 6 HOH 1 2001 2001 HOH HOH D .
V 6 HOH 2 2002 2002 HOH HOH D .
V 6 HOH 3 2003 2003 HOH HOH D .
V 6 HOH 4 2004 2004 HOH HOH D .
V 6 HOH 5 2005 2005 HOH HOH D .
V 6 HOH 6 2006 2006 HOH HOH D .
V 6 HOH 7 2007 2007 HOH HOH D .
V 6 HOH 8 2008 2008 HOH HOH D .
V 6 HOH 9 2009 2009 HOH HOH D .
V 6 HOH 10 2010 2010 HOH HOH D .
V 6 HOH 11 2011 2011 HOH HOH D .
V 6 HOH 12 2012 2012 HOH HOH D .
V 6 HOH 13 2013 2013 HOH HOH D .
V 6 HOH 14 2014 2014 HOH HOH D .
V 6 HOH 15 2015 2015 HOH HOH D .
V 6 HOH 16 2016 2016 HOH HOH D .
V 6 HOH 17 2017 2017 HOH HOH D .
V 6 HOH 18 2018 2018 HOH HOH D .
V 6 HOH 19 2019 2019 HOH HOH D .
V 6 HOH 20 2020 2020 HOH HOH D .
V 6 HOH 21 2021 2021 HOH HOH D .
V 6 HOH 22 2022 2022 HOH HOH D .
V 6 HOH 23 2023 2023 HOH HOH D .
V 6 HOH 24 2024 2024 HOH HOH D .
V 6 HOH 25 2025 2025 HOH HOH D .
V 6 HOH 26 2026 2026 HOH HOH D .
#
_pdbx_molecule_features.prd_id PRD_000207
_pdbx_molecule_features.name Decaplanin
_pdbx_molecule_features.type Glycopeptide
_pdbx_molecule_features.class Antibiotic
_pdbx_molecule_features.details
;DECAPLANIN IS A TRICYCLIC GLYCOPEPTIDE.
THE SCAFFOLD IS A HEPTAPEPTIDE WITH THE
CONFIGURATION D-D-L-D-D-L-L, GLYCOSYLATED
;
#
loop_
_pdbx_molecule.instance_id
_pdbx_molecule.prd_id
_pdbx_molecule.asym_id
1 PRD_000207 A
1 PRD_000207 E
1 PRD_000207 I
2 PRD_000207 B
2 PRD_000207 F
2 PRD_000207 L
3 PRD_000207 C
3 PRD_000207 G
3 PRD_000207 M
4 PRD_000207 D
4 PRD_000207 H
4 PRD_000207 R
#
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 OMX 6 A OMX 6 ? TYR '(BETAR)-BETA-HYDROXY-L-TYROSINE'
2 B OMX 6 B OMX 6 ? TYR '(BETAR)-BETA-HYDROXY-L-TYROSINE'
3 C OMX 6 C OMX 6 ? TYR '(BETAR)-BETA-HYDROXY-L-TYROSINE'
4 D OMX 6 D OMX 6 ? TYR '(BETAR)-BETA-HYDROXY-L-TYROSINE'
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details software_defined_assembly
_pdbx_struct_assembly.method_details PISA
_pdbx_struct_assembly.oligomeric_details tetrameric
_pdbx_struct_assembly.oligomeric_count 4
#
_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,K,L,M,N,O,P,Q,R,S,T,U,V
#
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)' 4680 ?
1 MORE -25.0 ?
1 'SSA (A^2)' 3690 ?
#
_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
#
_pdbx_struct_special_symmetry.id 1
_pdbx_struct_special_symmetry.PDB_model_num 1
_pdbx_struct_special_symmetry.auth_asym_id D
_pdbx_struct_special_symmetry.auth_comp_id HOH
_pdbx_struct_special_symmetry.auth_seq_id 2023
_pdbx_struct_special_symmetry.PDB_ins_code ?
_pdbx_struct_special_symmetry.label_asym_id V
_pdbx_struct_special_symmetry.label_comp_id HOH
_pdbx_struct_special_symmetry.label_seq_id .
#
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 2005-07-11
2 'Structure model' 1 1 2011-07-13
3 'Structure model' 1 2 2012-07-11
4 'Structure model' 1 3 2012-11-30
5 'Structure model' 1 4 2013-05-01
6 'Structure model' 2 0 2019-04-24
7 'Structure model' 2 1 2019-07-10
8 'Structure model' 2 2 2019-07-24
9 'Structure model' 3 0 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' Other
7 4 'Structure model' Other
8 5 'Structure model' 'Non-polymer description'
9 6 'Structure model' 'Data collection'
10 6 'Structure model' 'Derived calculations'
11 6 'Structure model' Other
12 6 'Structure model' 'Polymer sequence'
13 7 'Structure model' 'Data collection'
14 8 'Structure model' 'Data collection'
15 9 'Structure model' 'Atomic model'
16 9 'Structure model' 'Data collection'
17 9 'Structure model' 'Derived calculations'
18 9 'Structure model' Other
19 9 '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 6 'Structure model' diffrn_source
2 6 'Structure model' entity_poly
3 6 'Structure model' pdbx_database_proc
4 6 'Structure model' pdbx_database_status
5 6 'Structure model' pdbx_seq_map_depositor_info
6 6 'Structure model' struct_conn
7 7 'Structure model' diffrn_source
8 8 'Structure model' diffrn_source
9 9 'Structure model' atom_site
10 9 'Structure model' atom_site_anisotrop
11 9 'Structure model' chem_comp
12 9 'Structure model' entity
13 9 'Structure model' pdbx_branch_scheme
14 9 'Structure model' pdbx_chem_comp_identifier
15 9 'Structure model' pdbx_database_status
16 9 'Structure model' pdbx_entity_branch
17 9 'Structure model' pdbx_entity_branch_descriptor
18 9 'Structure model' pdbx_entity_branch_link
19 9 'Structure model' pdbx_entity_branch_list
20 9 'Structure model' pdbx_entity_nonpoly
21 9 'Structure model' pdbx_molecule
22 9 'Structure model' pdbx_nonpoly_scheme
23 9 'Structure model' pdbx_struct_assembly_gen
24 9 'Structure model' pdbx_struct_special_symmetry
25 9 'Structure model' struct_asym
26 9 'Structure model' struct_conn
27 9 'Structure model' struct_site
28 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 6 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
2 6 'Structure model' '_entity_poly.pdbx_seq_one_letter_code_can'
3 6 'Structure model' '_pdbx_database_status.recvd_author_approval'
4 6 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code'
5 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
6 7 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
7 8 'Structure model' '_diffrn_source.pdbx_synchrotron_site'
8 9 'Structure model' '_atom_site.B_iso_or_equiv'
9 9 'Structure model' '_atom_site.Cartn_x'
10 9 'Structure model' '_atom_site.Cartn_y'
11 9 'Structure model' '_atom_site.Cartn_z'
12 9 'Structure model' '_atom_site.auth_asym_id'
13 9 'Structure model' '_atom_site.auth_atom_id'
14 9 'Structure model' '_atom_site.auth_comp_id'
15 9 'Structure model' '_atom_site.auth_seq_id'
16 9 'Structure model' '_atom_site.label_asym_id'
17 9 'Structure model' '_atom_site.label_atom_id'
18 9 'Structure model' '_atom_site.label_comp_id'
19 9 'Structure model' '_atom_site.label_entity_id'
20 9 'Structure model' '_atom_site.occupancy'
21 9 'Structure model' '_atom_site.type_symbol'
22 9 'Structure model' '_atom_site_anisotrop.U[1][1]'
23 9 'Structure model' '_atom_site_anisotrop.U[1][2]'
24 9 'Structure model' '_atom_site_anisotrop.U[1][3]'
25 9 'Structure model' '_atom_site_anisotrop.U[2][2]'
26 9 'Structure model' '_atom_site_anisotrop.U[2][3]'
27 9 'Structure model' '_atom_site_anisotrop.U[3][3]'
28 9 'Structure model' '_atom_site_anisotrop.pdbx_auth_asym_id'
29 9 'Structure model' '_atom_site_anisotrop.pdbx_auth_atom_id'
30 9 'Structure model' '_atom_site_anisotrop.pdbx_auth_comp_id'
31 9 'Structure model' '_atom_site_anisotrop.pdbx_auth_seq_id'
32 9 'Structure model' '_atom_site_anisotrop.pdbx_label_asym_id'
33 9 'Structure model' '_atom_site_anisotrop.pdbx_label_atom_id'
34 9 'Structure model' '_atom_site_anisotrop.pdbx_label_comp_id'
35 9 'Structure model' '_atom_site_anisotrop.type_symbol'
36 9 'Structure model' '_chem_comp.name'
37 9 'Structure model' '_chem_comp.type'
38 9 'Structure model' '_pdbx_database_status.status_code_sf'
39 9 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list'
40 9 'Structure model' '_pdbx_struct_special_symmetry.label_asym_id'
41 9 'Structure model' '_struct_conn.pdbx_dist_value'
42 9 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
43 9 'Structure model' '_struct_conn.ptnr1_auth_asym_id'
44 9 'Structure model' '_struct_conn.ptnr1_auth_comp_id'
45 9 'Structure model' '_struct_conn.ptnr1_auth_seq_id'
46 9 'Structure model' '_struct_conn.ptnr1_label_asym_id'
47 9 'Structure model' '_struct_conn.ptnr1_label_atom_id'
48 9 'Structure model' '_struct_conn.ptnr1_label_comp_id'
49 9 'Structure model' '_struct_conn.ptnr1_label_seq_id'
50 9 'Structure model' '_struct_conn.ptnr2_auth_asym_id'
51 9 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
52 9 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
53 9 'Structure model' '_struct_conn.ptnr2_label_asym_id'
54 9 'Structure model' '_struct_conn.ptnr2_label_atom_id'
55 9 'Structure model' '_struct_conn.ptnr2_label_comp_id'
56 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
SHELXD phasing . ? 4
SHARP phasing . ? 5
DM phasing . ? 6
#
_pdbx_entry_details.entry_id 1HHF
_pdbx_entry_details.compound_details
;DECAPLANIN IS A TRICYCLIC GLYCOPEPTIDE.
HERE, DECAPLANIN IS REPRESENTED BY GROUPING TOGETHER THE
SEQUENCE (SEQRES) AND THE THREE LIGANDS (HET) BGC, ERE AND RAM.
GROUP: 1
NAME: DECAPLANIN
CHAIN: A, B, C, D
COMPONENT_1: PEPTIDE LIKE SEQUENCE RESIDUES 1 TO 7
COMPONENT_2: SUGAR RESIDUES 8, 9 AND 10
DESCRIPTION: DECAPLANIN IS A TRICYCLIC GLYCOPEPTIDE.
THE SCAFFOLD IS A HEPTAPEPTIDE WITH THE
CONFIGURATION D-D-L-D-D-L-L, GLYCOSYLATED
BY A MONOSACCHARIDE AND A DISACCHARIDE
;
_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 -120.68
_pdbx_validate_torsion.psi -52.14
#
loop_
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_mon_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.hetero
E 2 BGC 1 E BGC 1 A BGC 9 n
E 2 RAM 2 E RAM 2 A RAM 10 n
F 2 BGC 1 F BGC 1 B BGC 9 n
F 2 RAM 2 F RAM 2 B RAM 10 n
G 2 BGC 1 G BGC 1 C BGC 9 n
G 2 RAM 2 G RAM 2 C RAM 10 n
H 2 BGC 1 H BGC 1 D BGC 9 n
H 2 RAM 2 H RAM 2 D RAM 10 n
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
BGC 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpb
BGC 'COMMON NAME' GMML 1.0 b-D-glucopyranose
BGC 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-Glcp
BGC 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 Glc
RAM 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 LRhapa
RAM 'COMMON NAME' GMML 1.0 a-L-rhamnopyranose
RAM 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 a-L-Rhap
RAM 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 Rha
#
_pdbx_entity_branch.entity_id 2
_pdbx_entity_branch.type oligosaccharide
#
loop_
_pdbx_entity_branch_descriptor.ordinal
_pdbx_entity_branch_descriptor.entity_id
_pdbx_entity_branch_descriptor.descriptor
_pdbx_entity_branch_descriptor.type
_pdbx_entity_branch_descriptor.program
_pdbx_entity_branch_descriptor.program_version
1 2 LRhapa1-2DGlcpb1-ROH 'Glycam Condensed Sequence' GMML 1.0
2 2 'WURCS=2.0/2,2,1/[a2122h-1b_1-5][a2211m-1a_1-5]/1-2/a2-b1' WURCS PDB2Glycan 1.1.0
3 2 '[][D-1-deoxy-Glcp]{[(2+1)][a-L-Rhap]{}}' LINUCS PDB-CARE ?
#
_pdbx_entity_branch_link.link_id 1
_pdbx_entity_branch_link.entity_id 2
_pdbx_entity_branch_link.entity_branch_list_num_1 2
_pdbx_entity_branch_link.comp_id_1 RAM
_pdbx_entity_branch_link.atom_id_1 C1
_pdbx_entity_branch_link.leaving_atom_id_1 O1
_pdbx_entity_branch_link.entity_branch_list_num_2 1
_pdbx_entity_branch_link.comp_id_2 BGC
_pdbx_entity_branch_link.atom_id_2 O2
_pdbx_entity_branch_link.leaving_atom_id_2 HO2
_pdbx_entity_branch_link.value_order sing
_pdbx_entity_branch_link.details ?
#
loop_
_pdbx_entity_branch_list.entity_id
_pdbx_entity_branch_list.comp_id
_pdbx_entity_branch_list.num
_pdbx_entity_branch_list.hetero
2 BGC 1 n
2 RAM 2 n
#
loop_
_pdbx_entity_nonpoly.entity_id
_pdbx_entity_nonpoly.name
_pdbx_entity_nonpoly.comp_id
3 4-epi-vancosamine ERE
4 'CHLORIDE ION' CL
5 'PHOSPHATE ION' PO4
6 water HOH
#