data_3VY6 # _entry.id 3VY6 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.381 _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 3VY6 pdb_00003vy6 10.2210/pdb3vy6/pdb RCSB RCSB095647 ? ? WWPDB D_1000095647 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3VY7 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3VY6 _pdbx_database_status.recvd_initial_deposition_date 2012-09-21 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kanagawa, M.' 1 'Yamaguchi, Y.' 2 # _citation.id primary _citation.title 'Structural Basis for Multiple Sugar Recognition of Jacalin-related Human ZG16p Lectin' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 289 _citation.page_first 16954 _citation.page_last 16965 _citation.year 2014 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 24790092 _citation.pdbx_database_id_DOI 10.1074/jbc.M113.539114 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kanagawa, M.' 1 ? primary 'Liu, Y.' 2 ? primary 'Hanashima, S.' 3 ? primary 'Ikeda, A.' 4 ? primary 'Chai, W.' 5 ? primary 'Nakano, Y.' 6 ? primary 'Kojima-Aikawa, K.' 7 ? primary 'Feizi, T.' 8 ? primary 'Yamaguchi, Y.' 9 ? # _cell.entry_id 3VY6 _cell.length_a 58.2 _cell.length_b 73.1 _cell.length_c 30.5 _cell.angle_alpha 90.0 _cell.angle_beta 90.0 _cell.angle_gamma 90.0 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3VY6 _symmetry.space_group_name_H-M 'P 21 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? # 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 man 'Zymogen granule membrane protein 16' 15501.401 1 ? ? 'UNP residues 21-159' ? 2 branched man 'beta-D-glucopyranose-(1-3)-beta-D-glucopyranose' 342.297 1 ? ? ? ? 3 non-polymer syn 'CHLORIDE ION' 35.453 2 ? ? ? ? 4 water nat water 18.015 135 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'Zymogen granule protein 16, hZG16, Secretory lectin ZG16' 2 beta-laminaribiose # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;GSARSSSYSGEYGSGGGKRFSHSGNQLDGPITALRVRVNTYYIVGLQVRYGKVWSDYVGGRNGDLEEIFLHPGESVIQVS GKYKWYLKKLVFVTDKGRYLSFGKDSGTSFNAVPLHPNTVLRFISGRSGSLIDAIGLHWDV ; _entity_poly.pdbx_seq_one_letter_code_can ;GSARSSSYSGEYGSGGGKRFSHSGNQLDGPITALRVRVNTYYIVGLQVRYGKVWSDYVGGRNGDLEEIFLHPGESVIQVS GKYKWYLKKLVFVTDKGRYLSFGKDSGTSFNAVPLHPNTVLRFISGRSGSLIDAIGLHWDV ; _entity_poly.pdbx_strand_id A _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 GLY n 1 2 SER n 1 3 ALA n 1 4 ARG n 1 5 SER n 1 6 SER n 1 7 SER n 1 8 TYR n 1 9 SER n 1 10 GLY n 1 11 GLU n 1 12 TYR n 1 13 GLY n 1 14 SER n 1 15 GLY n 1 16 GLY n 1 17 GLY n 1 18 LYS n 1 19 ARG n 1 20 PHE n 1 21 SER n 1 22 HIS n 1 23 SER n 1 24 GLY n 1 25 ASN n 1 26 GLN n 1 27 LEU n 1 28 ASP n 1 29 GLY n 1 30 PRO n 1 31 ILE n 1 32 THR n 1 33 ALA n 1 34 LEU n 1 35 ARG n 1 36 VAL n 1 37 ARG n 1 38 VAL n 1 39 ASN n 1 40 THR n 1 41 TYR n 1 42 TYR n 1 43 ILE n 1 44 VAL n 1 45 GLY n 1 46 LEU n 1 47 GLN n 1 48 VAL n 1 49 ARG n 1 50 TYR n 1 51 GLY n 1 52 LYS n 1 53 VAL n 1 54 TRP n 1 55 SER n 1 56 ASP n 1 57 TYR n 1 58 VAL n 1 59 GLY n 1 60 GLY n 1 61 ARG n 1 62 ASN n 1 63 GLY n 1 64 ASP n 1 65 LEU n 1 66 GLU n 1 67 GLU n 1 68 ILE n 1 69 PHE n 1 70 LEU n 1 71 HIS n 1 72 PRO n 1 73 GLY n 1 74 GLU n 1 75 SER n 1 76 VAL n 1 77 ILE n 1 78 GLN n 1 79 VAL n 1 80 SER n 1 81 GLY n 1 82 LYS n 1 83 TYR n 1 84 LYS n 1 85 TRP n 1 86 TYR n 1 87 LEU n 1 88 LYS n 1 89 LYS n 1 90 LEU n 1 91 VAL n 1 92 PHE n 1 93 VAL n 1 94 THR n 1 95 ASP n 1 96 LYS n 1 97 GLY n 1 98 ARG n 1 99 TYR n 1 100 LEU n 1 101 SER n 1 102 PHE n 1 103 GLY n 1 104 LYS n 1 105 ASP n 1 106 SER n 1 107 GLY n 1 108 THR n 1 109 SER n 1 110 PHE n 1 111 ASN n 1 112 ALA n 1 113 VAL n 1 114 PRO n 1 115 LEU n 1 116 HIS n 1 117 PRO n 1 118 ASN n 1 119 THR n 1 120 VAL n 1 121 LEU n 1 122 ARG n 1 123 PHE n 1 124 ILE n 1 125 SER n 1 126 GLY n 1 127 ARG n 1 128 SER n 1 129 GLY n 1 130 SER n 1 131 LEU n 1 132 ILE n 1 133 ASP n 1 134 ALA n 1 135 ILE n 1 136 GLY n 1 137 LEU n 1 138 HIS n 1 139 TRP n 1 140 ASP n 1 141 VAL n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ZG16 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pCold-I _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code ZG16_HUMAN _struct_ref.pdbx_db_accession O60844 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;ARSSSYSGEYGSGGGKRFSHSGNQLDGPITALRVRVNTYYIVGLQVRYGKVWSDYVGGRNGDLEEIFLHPGESVIQVSGK YKWYLKKLVFVTDKGRYLSFGKDSGTSFNAVPLHPNTVLRFISGRSGSLIDAIGLHWDV ; _struct_ref.pdbx_align_begin 21 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3VY6 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 141 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession O60844 _struct_ref_seq.db_align_beg 21 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 159 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 21 _struct_ref_seq.pdbx_auth_seq_align_end 159 # 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 1 3VY6 GLY A 1 ? UNP O60844 ? ? 'expression tag' 19 1 1 3VY6 SER A 2 ? UNP O60844 ? ? 'expression tag' 20 2 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 BGC 'D-saccharide, beta linking' . beta-D-glucopyranose 'beta-D-glucose; D-glucose; glucose' 'C6 H12 O6' 180.156 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3VY6 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.09 _exptl_crystal.density_percent_sol 41.22 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.pdbx_details ;0.09M MES (pH 6.5), 0.09M sodium phosphate, 0.09M potassium phosphate, 1.8M sodium chloride , VAPOR DIFFUSION, SITTING DROP, temperature 293K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 210' _diffrn_detector.pdbx_collection_date 2010-10-08 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.00000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-17A' _diffrn_source.pdbx_synchrotron_site 'Photon Factory' _diffrn_source.pdbx_synchrotron_beamline BL-17A _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.00000 # _reflns.entry_id 3VY6 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.0 _reflns.d_resolution_high 2.00 _reflns.number_obs 9347 _reflns.number_all ? _reflns.percent_possible_obs 99.2 _reflns.pdbx_Rmerge_I_obs 0.090 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 19.6 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 7.0 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.00 _reflns_shell.d_res_low 2.03 _reflns_shell.percent_possible_all 98.5 _reflns_shell.Rmerge_I_obs 0.377 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.1 _reflns_shell.pdbx_redundancy 6.8 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3VY6 _refine.ls_number_reflns_obs 8806 _refine.ls_number_reflns_all ? _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 45.55 _refine.ls_d_res_high 2.00 _refine.ls_percent_reflns_obs 99.05 _refine.ls_R_factor_obs 0.19094 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.18915 _refine.ls_R_factor_R_free 0.22737 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.8 _refine.ls_number_reflns_R_free 442 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.949 _refine.correlation_coeff_Fo_to_Fc_free 0.936 _refine.B_iso_mean 20.838 _refine.aniso_B[1][1] -0.71 _refine.aniso_B[2][2] -0.16 _refine.aniso_B[3][3] 0.87 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 3apa _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.219 _refine.pdbx_overall_ESU_R_Free 0.174 _refine.overall_SU_ML 0.109 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 3.761 _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1084 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 25 _refine_hist.number_atoms_solvent 135 _refine_hist.number_atoms_total 1244 _refine_hist.d_res_high 2.00 _refine_hist.d_res_low 45.55 # 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_restraint_function _refine_ls_restr.pdbx_refine_id r_bond_refined_d 0.007 0.021 ? 1136 ? 'X-RAY DIFFRACTION' r_bond_other_d ? ? ? ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 1.050 1.965 ? 1534 ? 'X-RAY DIFFRACTION' r_angle_other_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 6.199 5.000 ? 137 ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 31.438 22.000 ? 50 ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 12.914 15.000 ? 179 ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 15.103 15.000 ? 9 ? 'X-RAY DIFFRACTION' r_chiral_restr 0.065 0.200 ? 164 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.003 0.020 ? 857 ? 'X-RAY DIFFRACTION' r_gen_planes_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbd_refined 0.179 0.200 ? 447 ? 'X-RAY DIFFRACTION' r_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_nbtor_refined 0.307 0.200 ? 754 ? 'X-RAY DIFFRACTION' r_nbtor_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_xyhbond_nbd_refined 0.125 0.200 ? 104 ? 'X-RAY DIFFRACTION' r_xyhbond_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_vdw_refined 0.138 0.200 ? 30 ? 'X-RAY DIFFRACTION' r_symmetry_vdw_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_hbond_refined 0.140 0.200 ? 18 ? 'X-RAY DIFFRACTION' r_symmetry_hbond_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION' r_symmetry_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_mcbond_it 0.476 1.500 ? 693 ? 'X-RAY DIFFRACTION' r_mcbond_other ? ? ? ? ? 'X-RAY DIFFRACTION' r_mcangle_it 0.837 2.000 ? 1077 ? 'X-RAY DIFFRACTION' r_scbond_it 1.189 3.000 ? 516 ? 'X-RAY DIFFRACTION' r_scangle_it 1.779 4.500 ? 457 ? 'X-RAY DIFFRACTION' r_rigid_bond_restr ? ? ? ? ? 'X-RAY DIFFRACTION' r_sphericity_free ? ? ? ? ? 'X-RAY DIFFRACTION' r_sphericity_bonded ? ? ? ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.996 _refine_ls_shell.d_res_low 2.048 _refine_ls_shell.number_reflns_R_work 615 _refine_ls_shell.R_factor_R_work 0.194 _refine_ls_shell.percent_reflns_obs 95.59 _refine_ls_shell.R_factor_R_free 0.258 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 35 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 3VY6 _struct.title 'Crystal structure of human pancreatic secretory protein ZG16p with laminaribiose' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3VY6 _struct_keywords.pdbx_keywords 'SUGAR BINDING PROTEIN' _struct_keywords.text 'beta-prism fold, SUGAR BINDING PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 4 ? # _struct_biol.id 1 _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id SER _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 23 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id GLY _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 29 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id SER _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 41 _struct_conf.end_auth_comp_id GLY _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 47 _struct_conf.pdbx_PDB_helix_class 5 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 7 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id covale1 _struct_conn.conn_type_id covale _struct_conn.pdbx_leaving_atom_flag both _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_comp_id BGC _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_label_atom_id O3 _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 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_comp_id BGC _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_label_atom_id C1 _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id BGC _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id BGC _struct_conn.ptnr2_auth_seq_id 2 _struct_conn.ptnr2_symmetry 1_555 _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 1.443 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLY _struct_mon_prot_cis.label_seq_id 10 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id GLY _struct_mon_prot_cis.auth_seq_id 28 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 GLU _struct_mon_prot_cis.pdbx_label_seq_id_2 11 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 GLU _struct_mon_prot_cis.pdbx_auth_seq_id_2 29 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle -5.59 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 3 ? C ? 4 ? D ? 4 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel D 3 4 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 SER A 7 ? GLY A 13 ? SER A 25 GLY A 31 A 2 ILE A 132 ? ASP A 140 ? ILE A 150 ASP A 158 A 3 VAL A 120 ? SER A 128 ? VAL A 138 SER A 146 A 4 LYS A 18 ? SER A 21 ? LYS A 36 SER A 39 B 1 VAL A 53 ? TRP A 54 ? VAL A 71 TRP A 72 B 2 ILE A 43 ? TYR A 50 ? ILE A 61 TYR A 68 B 3 VAL A 58 ? GLY A 59 ? VAL A 76 GLY A 77 C 1 VAL A 53 ? TRP A 54 ? VAL A 71 TRP A 72 C 2 ILE A 43 ? TYR A 50 ? ILE A 61 TYR A 68 C 3 ILE A 31 ? VAL A 38 ? ILE A 49 VAL A 56 C 4 ASP A 64 ? PHE A 69 ? ASP A 82 PHE A 87 D 1 TYR A 99 ? GLY A 103 ? TYR A 117 GLY A 121 D 2 LEU A 87 ? THR A 94 ? LEU A 105 THR A 112 D 3 VAL A 76 ? TYR A 83 ? VAL A 94 TYR A 101 D 4 THR A 108 ? ALA A 112 ? THR A 126 ALA A 130 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N SER A 9 ? N SER A 27 O LEU A 137 ? O LEU A 155 A 2 3 O ASP A 140 ? O ASP A 158 N VAL A 120 ? N VAL A 138 A 3 4 O GLY A 126 ? O GLY A 144 N PHE A 20 ? N PHE A 38 B 1 2 O VAL A 53 ? O VAL A 71 N TYR A 50 ? N TYR A 68 B 2 3 N LEU A 46 ? N LEU A 64 O VAL A 58 ? O VAL A 76 C 1 2 O VAL A 53 ? O VAL A 71 N TYR A 50 ? N TYR A 68 C 2 3 O GLN A 47 ? O GLN A 65 N ARG A 35 ? N ARG A 53 C 3 4 N LEU A 34 ? N LEU A 52 O ILE A 68 ? O ILE A 86 D 1 2 O LEU A 100 ? O LEU A 118 N PHE A 92 ? N PHE A 110 D 2 3 O VAL A 93 ? O VAL A 111 N GLN A 78 ? N GLN A 96 D 3 4 N VAL A 79 ? N VAL A 97 O ALA A 112 ? O ALA A 130 # _database_PDB_matrix.entry_id 3VY6 _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 3VY6 _atom_sites.fract_transf_matrix[1][1] 0.017176 _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] 0.013681 _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] 0.032835 _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_ _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 GLY 1 19 ? ? ? A . n A 1 2 SER 2 20 ? ? ? A . n A 1 3 ALA 3 21 ? ? ? A . n A 1 4 ARG 4 22 22 ARG ARG A . n A 1 5 SER 5 23 23 SER SER A . n A 1 6 SER 6 24 24 SER SER A . n A 1 7 SER 7 25 25 SER SER A . n A 1 8 TYR 8 26 26 TYR TYR A . n A 1 9 SER 9 27 27 SER SER A . n A 1 10 GLY 10 28 28 GLY GLY A . n A 1 11 GLU 11 29 29 GLU GLU A . n A 1 12 TYR 12 30 30 TYR TYR A . n A 1 13 GLY 13 31 31 GLY GLY A . n A 1 14 SER 14 32 32 SER SER A . n A 1 15 GLY 15 33 33 GLY GLY A . n A 1 16 GLY 16 34 34 GLY GLY A . n A 1 17 GLY 17 35 35 GLY GLY A . n A 1 18 LYS 18 36 36 LYS LYS A . n A 1 19 ARG 19 37 37 ARG ARG A . n A 1 20 PHE 20 38 38 PHE PHE A . n A 1 21 SER 21 39 39 SER SER A . n A 1 22 HIS 22 40 40 HIS HIS A . n A 1 23 SER 23 41 41 SER SER A . n A 1 24 GLY 24 42 42 GLY GLY A . n A 1 25 ASN 25 43 43 ASN ASN A . n A 1 26 GLN 26 44 44 GLN GLN A . n A 1 27 LEU 27 45 45 LEU LEU A . n A 1 28 ASP 28 46 46 ASP ASP A . n A 1 29 GLY 29 47 47 GLY GLY A . n A 1 30 PRO 30 48 48 PRO PRO A . n A 1 31 ILE 31 49 49 ILE ILE A . n A 1 32 THR 32 50 50 THR THR A . n A 1 33 ALA 33 51 51 ALA ALA A . n A 1 34 LEU 34 52 52 LEU LEU A . n A 1 35 ARG 35 53 53 ARG ARG A . n A 1 36 VAL 36 54 54 VAL VAL A . n A 1 37 ARG 37 55 55 ARG ARG A . n A 1 38 VAL 38 56 56 VAL VAL A . n A 1 39 ASN 39 57 57 ASN ASN A . n A 1 40 THR 40 58 58 THR THR A . n A 1 41 TYR 41 59 59 TYR TYR A . n A 1 42 TYR 42 60 60 TYR TYR A . n A 1 43 ILE 43 61 61 ILE ILE A . n A 1 44 VAL 44 62 62 VAL VAL A . n A 1 45 GLY 45 63 63 GLY GLY A . n A 1 46 LEU 46 64 64 LEU LEU A . n A 1 47 GLN 47 65 65 GLN GLN A . n A 1 48 VAL 48 66 66 VAL VAL A . n A 1 49 ARG 49 67 67 ARG ARG A . n A 1 50 TYR 50 68 68 TYR TYR A . n A 1 51 GLY 51 69 69 GLY GLY A . n A 1 52 LYS 52 70 70 LYS LYS A . n A 1 53 VAL 53 71 71 VAL VAL A . n A 1 54 TRP 54 72 72 TRP TRP A . n A 1 55 SER 55 73 73 SER SER A . n A 1 56 ASP 56 74 74 ASP ASP A . n A 1 57 TYR 57 75 75 TYR TYR A . n A 1 58 VAL 58 76 76 VAL VAL A . n A 1 59 GLY 59 77 77 GLY GLY A . n A 1 60 GLY 60 78 78 GLY GLY A . n A 1 61 ARG 61 79 79 ARG ARG A . n A 1 62 ASN 62 80 80 ASN ASN A . n A 1 63 GLY 63 81 81 GLY GLY A . n A 1 64 ASP 64 82 82 ASP ASP A . n A 1 65 LEU 65 83 83 LEU LEU A . n A 1 66 GLU 66 84 84 GLU GLU A . n A 1 67 GLU 67 85 85 GLU GLU A . n A 1 68 ILE 68 86 86 ILE ILE A . n A 1 69 PHE 69 87 87 PHE PHE A . n A 1 70 LEU 70 88 88 LEU LEU A . n A 1 71 HIS 71 89 89 HIS HIS A . n A 1 72 PRO 72 90 90 PRO PRO A . n A 1 73 GLY 73 91 91 GLY GLY A . n A 1 74 GLU 74 92 92 GLU GLU A . n A 1 75 SER 75 93 93 SER SER A . n A 1 76 VAL 76 94 94 VAL VAL A . n A 1 77 ILE 77 95 95 ILE ILE A . n A 1 78 GLN 78 96 96 GLN GLN A . n A 1 79 VAL 79 97 97 VAL VAL A . n A 1 80 SER 80 98 98 SER SER A . n A 1 81 GLY 81 99 99 GLY GLY A . n A 1 82 LYS 82 100 100 LYS LYS A . n A 1 83 TYR 83 101 101 TYR TYR A . n A 1 84 LYS 84 102 102 LYS LYS A . n A 1 85 TRP 85 103 103 TRP TRP A . n A 1 86 TYR 86 104 104 TYR TYR A . n A 1 87 LEU 87 105 105 LEU LEU A . n A 1 88 LYS 88 106 106 LYS LYS A . n A 1 89 LYS 89 107 107 LYS LYS A . n A 1 90 LEU 90 108 108 LEU LEU A . n A 1 91 VAL 91 109 109 VAL VAL A . n A 1 92 PHE 92 110 110 PHE PHE A . n A 1 93 VAL 93 111 111 VAL VAL A . n A 1 94 THR 94 112 112 THR THR A . n A 1 95 ASP 95 113 113 ASP ASP A . n A 1 96 LYS 96 114 114 LYS LYS A . n A 1 97 GLY 97 115 115 GLY GLY A . n A 1 98 ARG 98 116 116 ARG ARG A . n A 1 99 TYR 99 117 117 TYR TYR A . n A 1 100 LEU 100 118 118 LEU LEU A . n A 1 101 SER 101 119 119 SER SER A . n A 1 102 PHE 102 120 120 PHE PHE A . n A 1 103 GLY 103 121 121 GLY GLY A . n A 1 104 LYS 104 122 122 LYS LYS A . n A 1 105 ASP 105 123 123 ASP ASP A . n A 1 106 SER 106 124 124 SER SER A . n A 1 107 GLY 107 125 125 GLY GLY A . n A 1 108 THR 108 126 126 THR THR A . n A 1 109 SER 109 127 127 SER SER A . n A 1 110 PHE 110 128 128 PHE PHE A . n A 1 111 ASN 111 129 129 ASN ASN A . n A 1 112 ALA 112 130 130 ALA ALA A . n A 1 113 VAL 113 131 131 VAL VAL A . n A 1 114 PRO 114 132 132 PRO PRO A . n A 1 115 LEU 115 133 133 LEU LEU A . n A 1 116 HIS 116 134 134 HIS HIS A . n A 1 117 PRO 117 135 135 PRO PRO A . n A 1 118 ASN 118 136 136 ASN ASN A . n A 1 119 THR 119 137 137 THR THR A . n A 1 120 VAL 120 138 138 VAL VAL A . n A 1 121 LEU 121 139 139 LEU LEU A . n A 1 122 ARG 122 140 140 ARG ARG A . n A 1 123 PHE 123 141 141 PHE PHE A . n A 1 124 ILE 124 142 142 ILE ILE A . n A 1 125 SER 125 143 143 SER SER A . n A 1 126 GLY 126 144 144 GLY GLY A . n A 1 127 ARG 127 145 145 ARG ARG A . n A 1 128 SER 128 146 146 SER SER A . n A 1 129 GLY 129 147 147 GLY GLY A . n A 1 130 SER 130 148 148 SER SER A . n A 1 131 LEU 131 149 149 LEU LEU A . n A 1 132 ILE 132 150 150 ILE ILE A . n A 1 133 ASP 133 151 151 ASP ASP A . n A 1 134 ALA 134 152 152 ALA ALA A . n A 1 135 ILE 135 153 153 ILE ILE A . n A 1 136 GLY 136 154 154 GLY GLY A . n A 1 137 LEU 137 155 155 LEU LEU A . n A 1 138 HIS 138 156 156 HIS HIS A . n A 1 139 TRP 139 157 157 TRP TRP A . n A 1 140 ASP 140 158 158 ASP ASP A . n A 1 141 VAL 141 159 159 VAL VAL A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 CL 1 703 1 CL CL A . D 3 CL 1 704 2 CL CL A . E 4 HOH 1 801 1 HOH HOH A . E 4 HOH 2 802 3 HOH HOH A . E 4 HOH 3 803 4 HOH HOH A . E 4 HOH 4 804 5 HOH HOH A . E 4 HOH 5 805 6 HOH HOH A . E 4 HOH 6 806 7 HOH HOH A . E 4 HOH 7 807 8 HOH HOH A . E 4 HOH 8 808 9 HOH HOH A . E 4 HOH 9 809 10 HOH HOH A . E 4 HOH 10 810 11 HOH HOH A . E 4 HOH 11 811 12 HOH HOH A . E 4 HOH 12 812 13 HOH HOH A . E 4 HOH 13 813 14 HOH HOH A . E 4 HOH 14 814 15 HOH HOH A . E 4 HOH 15 815 16 HOH HOH A . E 4 HOH 16 816 17 HOH HOH A . E 4 HOH 17 817 18 HOH HOH A . E 4 HOH 18 818 19 HOH HOH A . E 4 HOH 19 819 21 HOH HOH A . E 4 HOH 20 820 22 HOH HOH A . E 4 HOH 21 821 23 HOH HOH A . E 4 HOH 22 822 24 HOH HOH A . E 4 HOH 23 823 25 HOH HOH A . E 4 HOH 24 824 26 HOH HOH A . E 4 HOH 25 825 27 HOH HOH A . E 4 HOH 26 826 28 HOH HOH A . E 4 HOH 27 827 29 HOH HOH A . E 4 HOH 28 828 30 HOH HOH A . E 4 HOH 29 829 31 HOH HOH A . E 4 HOH 30 830 32 HOH HOH A . E 4 HOH 31 831 33 HOH HOH A . E 4 HOH 32 832 34 HOH HOH A . E 4 HOH 33 833 35 HOH HOH A . E 4 HOH 34 834 36 HOH HOH A . E 4 HOH 35 835 37 HOH HOH A . E 4 HOH 36 836 38 HOH HOH A . E 4 HOH 37 837 39 HOH HOH A . E 4 HOH 38 838 40 HOH HOH A . E 4 HOH 39 839 41 HOH HOH A . E 4 HOH 40 840 42 HOH HOH A . E 4 HOH 41 841 43 HOH HOH A . E 4 HOH 42 842 44 HOH HOH A . E 4 HOH 43 843 45 HOH HOH A . E 4 HOH 44 844 46 HOH HOH A . E 4 HOH 45 845 47 HOH HOH A . E 4 HOH 46 846 48 HOH HOH A . E 4 HOH 47 847 49 HOH HOH A . E 4 HOH 48 848 50 HOH HOH A . E 4 HOH 49 849 51 HOH HOH A . E 4 HOH 50 850 52 HOH HOH A . E 4 HOH 51 851 53 HOH HOH A . E 4 HOH 52 852 54 HOH HOH A . E 4 HOH 53 853 55 HOH HOH A . E 4 HOH 54 854 56 HOH HOH A . E 4 HOH 55 855 57 HOH HOH A . E 4 HOH 56 856 65 HOH HOH A . E 4 HOH 57 857 66 HOH HOH A . E 4 HOH 58 858 67 HOH HOH A . E 4 HOH 59 859 68 HOH HOH A . E 4 HOH 60 860 69 HOH HOH A . E 4 HOH 61 861 58 HOH HOH A . E 4 HOH 62 862 60 HOH HOH A . E 4 HOH 63 863 61 HOH HOH A . E 4 HOH 64 864 62 HOH HOH A . E 4 HOH 65 865 71 HOH HOH A . E 4 HOH 66 866 72 HOH HOH A . E 4 HOH 67 867 73 HOH HOH A . E 4 HOH 68 868 74 HOH HOH A . E 4 HOH 69 869 75 HOH HOH A . E 4 HOH 70 870 76 HOH HOH A . E 4 HOH 71 871 77 HOH HOH A . E 4 HOH 72 872 78 HOH HOH A . E 4 HOH 73 873 79 HOH HOH A . E 4 HOH 74 874 81 HOH HOH A . E 4 HOH 75 875 82 HOH HOH A . E 4 HOH 76 876 83 HOH HOH A . E 4 HOH 77 877 84 HOH HOH A . E 4 HOH 78 878 85 HOH HOH A . E 4 HOH 79 879 86 HOH HOH A . E 4 HOH 80 880 87 HOH HOH A . E 4 HOH 81 881 89 HOH HOH A . E 4 HOH 82 882 90 HOH HOH A . E 4 HOH 83 883 91 HOH HOH A . E 4 HOH 84 884 92 HOH HOH A . E 4 HOH 85 885 93 HOH HOH A . E 4 HOH 86 886 94 HOH HOH A . E 4 HOH 87 887 95 HOH HOH A . E 4 HOH 88 888 97 HOH HOH A . E 4 HOH 89 889 98 HOH HOH A . E 4 HOH 90 890 99 HOH HOH A . E 4 HOH 91 891 100 HOH HOH A . E 4 HOH 92 892 101 HOH HOH A . E 4 HOH 93 893 102 HOH HOH A . E 4 HOH 94 894 103 HOH HOH A . E 4 HOH 95 895 104 HOH HOH A . E 4 HOH 96 896 105 HOH HOH A . E 4 HOH 97 897 106 HOH HOH A . E 4 HOH 98 898 108 HOH HOH A . E 4 HOH 99 899 109 HOH HOH A . E 4 HOH 100 900 111 HOH HOH A . E 4 HOH 101 901 112 HOH HOH A . E 4 HOH 102 902 113 HOH HOH A . E 4 HOH 103 903 115 HOH HOH A . E 4 HOH 104 904 116 HOH HOH A . E 4 HOH 105 905 121 HOH HOH A . E 4 HOH 106 906 122 HOH HOH A . E 4 HOH 107 907 124 HOH HOH A . E 4 HOH 108 908 125 HOH HOH A . E 4 HOH 109 909 126 HOH HOH A . E 4 HOH 110 910 128 HOH HOH A . E 4 HOH 111 911 129 HOH HOH A . E 4 HOH 112 912 130 HOH HOH A . E 4 HOH 113 913 131 HOH HOH A . E 4 HOH 114 914 133 HOH HOH A . E 4 HOH 115 915 134 HOH HOH A . E 4 HOH 116 916 135 HOH HOH A . E 4 HOH 117 917 136 HOH HOH A . E 4 HOH 118 918 137 HOH HOH A . E 4 HOH 119 919 138 HOH HOH A . E 4 HOH 120 920 139 HOH HOH A . E 4 HOH 121 921 140 HOH HOH A . E 4 HOH 122 922 141 HOH HOH A . E 4 HOH 123 923 142 HOH HOH A . E 4 HOH 124 924 143 HOH HOH A . E 4 HOH 125 925 145 HOH HOH A . E 4 HOH 126 926 146 HOH HOH A . E 4 HOH 127 927 147 HOH HOH A . E 4 HOH 128 928 148 HOH HOH A . E 4 HOH 129 929 149 HOH HOH A . E 4 HOH 130 930 150 HOH HOH A . E 4 HOH 131 931 151 HOH HOH A . E 4 HOH 132 932 152 HOH HOH A . E 4 HOH 133 933 154 HOH HOH A . E 4 HOH 134 934 155 HOH HOH A . E 4 HOH 135 935 156 HOH HOH A . # _pdbx_molecule_features.prd_id PRD_900024 _pdbx_molecule_features.name beta-laminaribiose _pdbx_molecule_features.type Oligosaccharide _pdbx_molecule_features.class Antimicrobial _pdbx_molecule_features.details oligosaccharide # _pdbx_molecule.instance_id 1 _pdbx_molecule.prd_id PRD_900024 _pdbx_molecule.asym_id B # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _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 A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 802 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id E _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 2013-09-25 2 'Structure model' 1 1 2014-09-03 3 'Structure model' 1 2 2017-11-22 4 'Structure model' 2 0 2020-07-29 5 'Structure model' 2 1 2023-11-08 # 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 4 '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' 'Database references' 2 3 'Structure model' 'Refinement description' 3 4 'Structure model' 'Atomic model' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Structure summary' 8 5 'Structure model' 'Data collection' 9 5 'Structure model' 'Database references' 10 5 'Structure model' 'Refinement description' 11 5 '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 3 'Structure model' software 2 4 'Structure model' atom_site 3 4 'Structure model' chem_comp 4 4 'Structure model' entity 5 4 'Structure model' entity_name_com 6 4 'Structure model' pdbx_branch_scheme 7 4 'Structure model' pdbx_chem_comp_identifier 8 4 'Structure model' pdbx_entity_branch 9 4 'Structure model' pdbx_entity_branch_descriptor 10 4 'Structure model' pdbx_entity_branch_link 11 4 'Structure model' pdbx_entity_branch_list 12 4 'Structure model' pdbx_entity_nonpoly 13 4 'Structure model' pdbx_molecule_features 14 4 'Structure model' pdbx_nonpoly_scheme 15 4 'Structure model' pdbx_struct_assembly_gen 16 4 'Structure model' pdbx_struct_special_symmetry 17 4 'Structure model' struct_asym 18 4 'Structure model' struct_conn 19 4 'Structure model' struct_ref_seq_dif 20 4 'Structure model' struct_site 21 4 'Structure model' struct_site_gen 22 5 'Structure model' chem_comp 23 5 'Structure model' chem_comp_atom 24 5 'Structure model' chem_comp_bond 25 5 'Structure model' database_2 26 5 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_atom_site.auth_asym_id' 2 4 'Structure model' '_atom_site.auth_seq_id' 3 4 'Structure model' '_atom_site.label_asym_id' 4 4 'Structure model' '_chem_comp.name' 5 4 'Structure model' '_chem_comp.type' 6 4 'Structure model' '_entity.formula_weight' 7 4 'Structure model' '_entity.pdbx_description' 8 4 'Structure model' '_entity.pdbx_number_of_molecules' 9 4 'Structure model' '_entity.type' 10 4 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list' 11 4 'Structure model' '_pdbx_struct_special_symmetry.label_asym_id' 12 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 13 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 14 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 15 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 16 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 17 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 18 4 'Structure model' '_struct_ref_seq_dif.details' 19 5 'Structure model' '_chem_comp.pdbx_synonyms' 20 5 'Structure model' '_database_2.pdbx_DOI' 21 5 'Structure model' '_database_2.pdbx_database_accession' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 MOLREP phasing . ? 2 REFMAC refinement 5.2.0019 ? 3 DENZO 'data reduction' . ? 4 SCALEPACK 'data scaling' . ? 5 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ASN A 57 ? ? -121.19 -163.36 2 1 LYS A 102 ? ? -125.57 -105.47 # 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 A GLY 19 ? A GLY 1 2 1 Y 1 A SER 20 ? A SER 2 3 1 Y 1 A ALA 21 ? A ALA 3 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 BGC C2 C N R 74 BGC C3 C N S 75 BGC C4 C N S 76 BGC C5 C N R 77 BGC C6 C N N 78 BGC C1 C N R 79 BGC O1 O N N 80 BGC O2 O N N 81 BGC O3 O N N 82 BGC O4 O N N 83 BGC O5 O N N 84 BGC O6 O N N 85 BGC H2 H N N 86 BGC H3 H N N 87 BGC H4 H N N 88 BGC H5 H N N 89 BGC H61 H N N 90 BGC H62 H N N 91 BGC H1 H N N 92 BGC HO1 H N N 93 BGC HO2 H N N 94 BGC HO3 H N N 95 BGC HO4 H N N 96 BGC HO6 H N N 97 CL CL CL N N 98 GLN N N N N 99 GLN CA C N S 100 GLN C C N N 101 GLN O O N N 102 GLN CB C N N 103 GLN CG C N N 104 GLN CD C N N 105 GLN OE1 O N N 106 GLN NE2 N N N 107 GLN OXT O N N 108 GLN H H N N 109 GLN H2 H N N 110 GLN HA H N N 111 GLN HB2 H N N 112 GLN HB3 H N N 113 GLN HG2 H N N 114 GLN HG3 H N N 115 GLN HE21 H N N 116 GLN HE22 H N N 117 GLN HXT H N N 118 GLU N N N N 119 GLU CA C N S 120 GLU C C N N 121 GLU O O N N 122 GLU CB C N N 123 GLU CG C N N 124 GLU CD C N N 125 GLU OE1 O N N 126 GLU OE2 O N N 127 GLU OXT O N N 128 GLU H H N N 129 GLU H2 H N N 130 GLU HA H N N 131 GLU HB2 H N N 132 GLU HB3 H N N 133 GLU HG2 H N N 134 GLU HG3 H N N 135 GLU HE2 H N N 136 GLU HXT H N N 137 GLY N N N N 138 GLY CA C N N 139 GLY C C N N 140 GLY O O N N 141 GLY OXT O N N 142 GLY H H N N 143 GLY H2 H N N 144 GLY HA2 H N N 145 GLY HA3 H N N 146 GLY HXT H N N 147 HIS N N N N 148 HIS CA C N S 149 HIS C C N N 150 HIS O O N N 151 HIS CB C N N 152 HIS CG C Y N 153 HIS ND1 N Y N 154 HIS CD2 C Y N 155 HIS CE1 C Y N 156 HIS NE2 N Y N 157 HIS OXT O N N 158 HIS H H N N 159 HIS H2 H N N 160 HIS HA H N N 161 HIS HB2 H N N 162 HIS HB3 H N N 163 HIS HD1 H N N 164 HIS HD2 H N N 165 HIS HE1 H N N 166 HIS HE2 H N N 167 HIS HXT H N N 168 HOH O O N N 169 HOH H1 H N N 170 HOH H2 H N N 171 ILE N N N N 172 ILE CA C N S 173 ILE C C N N 174 ILE O O N N 175 ILE CB C N S 176 ILE CG1 C N N 177 ILE CG2 C N N 178 ILE CD1 C N N 179 ILE OXT O N N 180 ILE H H N N 181 ILE H2 H N N 182 ILE HA H N N 183 ILE HB H N N 184 ILE HG12 H N N 185 ILE HG13 H N N 186 ILE HG21 H N N 187 ILE HG22 H N N 188 ILE HG23 H N N 189 ILE HD11 H N N 190 ILE HD12 H N N 191 ILE HD13 H N N 192 ILE HXT H N N 193 LEU N N N N 194 LEU CA C N S 195 LEU C C N N 196 LEU O O N N 197 LEU CB C N N 198 LEU CG C N N 199 LEU CD1 C N N 200 LEU CD2 C N N 201 LEU OXT O N N 202 LEU H H N N 203 LEU H2 H N N 204 LEU HA H N N 205 LEU HB2 H N N 206 LEU HB3 H N N 207 LEU HG H N N 208 LEU HD11 H N N 209 LEU HD12 H N N 210 LEU HD13 H N N 211 LEU HD21 H N N 212 LEU HD22 H N N 213 LEU HD23 H N N 214 LEU HXT H N N 215 LYS N N N N 216 LYS CA C N S 217 LYS C C N N 218 LYS O O N N 219 LYS CB C N N 220 LYS CG C N N 221 LYS CD C N N 222 LYS CE C N N 223 LYS NZ N N N 224 LYS OXT O N N 225 LYS H H N N 226 LYS H2 H N N 227 LYS HA H N N 228 LYS HB2 H N N 229 LYS HB3 H N N 230 LYS HG2 H N N 231 LYS HG3 H N N 232 LYS HD2 H N N 233 LYS HD3 H N N 234 LYS HE2 H N N 235 LYS HE3 H N N 236 LYS HZ1 H N N 237 LYS HZ2 H N N 238 LYS HZ3 H N N 239 LYS HXT H N N 240 PHE N N N N 241 PHE CA C N S 242 PHE C C N N 243 PHE O O N N 244 PHE CB C N N 245 PHE CG C Y N 246 PHE CD1 C Y N 247 PHE CD2 C Y N 248 PHE CE1 C Y N 249 PHE CE2 C Y N 250 PHE CZ C Y N 251 PHE OXT O N N 252 PHE H H N N 253 PHE H2 H N N 254 PHE HA H N N 255 PHE HB2 H N N 256 PHE HB3 H N N 257 PHE HD1 H N N 258 PHE HD2 H N N 259 PHE HE1 H N N 260 PHE HE2 H N N 261 PHE HZ H N N 262 PHE HXT H N N 263 PRO N N N N 264 PRO CA C N S 265 PRO C C N N 266 PRO O O N N 267 PRO CB C N N 268 PRO CG C N N 269 PRO CD C N N 270 PRO OXT O N N 271 PRO H H N N 272 PRO HA H N N 273 PRO HB2 H N N 274 PRO HB3 H N N 275 PRO HG2 H N N 276 PRO HG3 H N N 277 PRO HD2 H N N 278 PRO HD3 H N N 279 PRO HXT H N N 280 SER N N N N 281 SER CA C N S 282 SER C C N N 283 SER O O N N 284 SER CB C N N 285 SER OG O N N 286 SER OXT O N N 287 SER H H N N 288 SER H2 H N N 289 SER HA H N N 290 SER HB2 H N N 291 SER HB3 H N N 292 SER HG H N N 293 SER HXT H N N 294 THR N N N N 295 THR CA C N S 296 THR C C N N 297 THR O O N N 298 THR CB C N R 299 THR OG1 O N N 300 THR CG2 C N N 301 THR OXT O N N 302 THR H H N N 303 THR H2 H N N 304 THR HA H N N 305 THR HB H N N 306 THR HG1 H N N 307 THR HG21 H N N 308 THR HG22 H N N 309 THR HG23 H N N 310 THR HXT H N N 311 TRP N N N N 312 TRP CA C N S 313 TRP C C N N 314 TRP O O N N 315 TRP CB C N N 316 TRP CG C Y N 317 TRP CD1 C Y N 318 TRP CD2 C Y N 319 TRP NE1 N Y N 320 TRP CE2 C Y N 321 TRP CE3 C Y N 322 TRP CZ2 C Y N 323 TRP CZ3 C Y N 324 TRP CH2 C Y N 325 TRP OXT O N N 326 TRP H H N N 327 TRP H2 H N N 328 TRP HA H N N 329 TRP HB2 H N N 330 TRP HB3 H N N 331 TRP HD1 H N N 332 TRP HE1 H N N 333 TRP HE3 H N N 334 TRP HZ2 H N N 335 TRP HZ3 H N N 336 TRP HH2 H N N 337 TRP HXT H N N 338 TYR N N N N 339 TYR CA C N S 340 TYR C C N N 341 TYR O O N N 342 TYR CB C N N 343 TYR CG C Y N 344 TYR CD1 C Y N 345 TYR CD2 C Y N 346 TYR CE1 C Y N 347 TYR CE2 C Y N 348 TYR CZ C Y N 349 TYR OH O N N 350 TYR OXT O N N 351 TYR H H N N 352 TYR H2 H N N 353 TYR HA H N N 354 TYR HB2 H N N 355 TYR HB3 H N N 356 TYR HD1 H N N 357 TYR HD2 H N N 358 TYR HE1 H N N 359 TYR HE2 H N N 360 TYR HH H N N 361 TYR HXT H N N 362 VAL N N N N 363 VAL CA C N S 364 VAL C C N N 365 VAL O O N N 366 VAL CB C N N 367 VAL CG1 C N N 368 VAL CG2 C N N 369 VAL OXT O N N 370 VAL H H N N 371 VAL H2 H N N 372 VAL HA H N N 373 VAL HB H N N 374 VAL HG11 H N N 375 VAL HG12 H N N 376 VAL HG13 H N N 377 VAL HG21 H N N 378 VAL HG22 H N N 379 VAL HG23 H N N 380 VAL HXT H N N 381 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 BGC C2 C3 sing N N 70 BGC C2 C1 sing N N 71 BGC C2 O2 sing N N 72 BGC C2 H2 sing N N 73 BGC C3 C4 sing N N 74 BGC C3 O3 sing N N 75 BGC C3 H3 sing N N 76 BGC C4 C5 sing N N 77 BGC C4 O4 sing N N 78 BGC C4 H4 sing N N 79 BGC C5 C6 sing N N 80 BGC C5 O5 sing N N 81 BGC C5 H5 sing N N 82 BGC C6 O6 sing N N 83 BGC C6 H61 sing N N 84 BGC C6 H62 sing N N 85 BGC C1 O1 sing N N 86 BGC C1 O5 sing N N 87 BGC C1 H1 sing N N 88 BGC O1 HO1 sing N N 89 BGC O2 HO2 sing N N 90 BGC O3 HO3 sing N N 91 BGC O4 HO4 sing N N 92 BGC O6 HO6 sing N N 93 GLN N CA sing N N 94 GLN N H sing N N 95 GLN N H2 sing N N 96 GLN CA C sing N N 97 GLN CA CB sing N N 98 GLN CA HA sing N N 99 GLN C O doub N N 100 GLN C OXT sing N N 101 GLN CB CG sing N N 102 GLN CB HB2 sing N N 103 GLN CB HB3 sing N N 104 GLN CG CD sing N N 105 GLN CG HG2 sing N N 106 GLN CG HG3 sing N N 107 GLN CD OE1 doub N N 108 GLN CD NE2 sing N N 109 GLN NE2 HE21 sing N N 110 GLN NE2 HE22 sing N N 111 GLN OXT HXT sing N N 112 GLU N CA sing N N 113 GLU N H sing N N 114 GLU N H2 sing N N 115 GLU CA C sing N N 116 GLU CA CB sing N N 117 GLU CA HA sing N N 118 GLU C O doub N N 119 GLU C OXT sing N N 120 GLU CB CG sing N N 121 GLU CB HB2 sing N N 122 GLU CB HB3 sing N N 123 GLU CG CD sing N N 124 GLU CG HG2 sing N N 125 GLU CG HG3 sing N N 126 GLU CD OE1 doub N N 127 GLU CD OE2 sing N N 128 GLU OE2 HE2 sing N N 129 GLU OXT HXT sing N N 130 GLY N CA sing N N 131 GLY N H sing N N 132 GLY N H2 sing N N 133 GLY CA C sing N N 134 GLY CA HA2 sing N N 135 GLY CA HA3 sing N N 136 GLY C O doub N N 137 GLY C OXT sing N N 138 GLY OXT HXT sing N N 139 HIS N CA sing N N 140 HIS N H sing N N 141 HIS N H2 sing N N 142 HIS CA C sing N N 143 HIS CA CB sing N N 144 HIS CA HA sing N N 145 HIS C O doub N N 146 HIS C OXT sing N N 147 HIS CB CG sing N N 148 HIS CB HB2 sing N N 149 HIS CB HB3 sing N N 150 HIS CG ND1 sing Y N 151 HIS CG CD2 doub Y N 152 HIS ND1 CE1 doub Y N 153 HIS ND1 HD1 sing N N 154 HIS CD2 NE2 sing Y N 155 HIS CD2 HD2 sing N N 156 HIS CE1 NE2 sing Y N 157 HIS CE1 HE1 sing N N 158 HIS NE2 HE2 sing N N 159 HIS OXT HXT sing N N 160 HOH O H1 sing N N 161 HOH O H2 sing N N 162 ILE N CA sing N N 163 ILE N H sing N N 164 ILE N H2 sing N N 165 ILE CA C sing N N 166 ILE CA CB sing N N 167 ILE CA HA sing N N 168 ILE C O doub N N 169 ILE C OXT sing N N 170 ILE CB CG1 sing N N 171 ILE CB CG2 sing N N 172 ILE CB HB sing N N 173 ILE CG1 CD1 sing N N 174 ILE CG1 HG12 sing N N 175 ILE CG1 HG13 sing N N 176 ILE CG2 HG21 sing N N 177 ILE CG2 HG22 sing N N 178 ILE CG2 HG23 sing N N 179 ILE CD1 HD11 sing N N 180 ILE CD1 HD12 sing N N 181 ILE CD1 HD13 sing N N 182 ILE OXT HXT sing N N 183 LEU N CA sing N N 184 LEU N H sing N N 185 LEU N H2 sing N N 186 LEU CA C sing N N 187 LEU CA CB sing N N 188 LEU CA HA sing N N 189 LEU C O doub N N 190 LEU C OXT sing N N 191 LEU CB CG sing N N 192 LEU CB HB2 sing N N 193 LEU CB HB3 sing N N 194 LEU CG CD1 sing N N 195 LEU CG CD2 sing N N 196 LEU CG HG sing N N 197 LEU CD1 HD11 sing N N 198 LEU CD1 HD12 sing N N 199 LEU CD1 HD13 sing N N 200 LEU CD2 HD21 sing N N 201 LEU CD2 HD22 sing N N 202 LEU CD2 HD23 sing N N 203 LEU OXT HXT sing N N 204 LYS N CA sing N N 205 LYS N H sing N N 206 LYS N H2 sing N N 207 LYS CA C sing N N 208 LYS CA CB sing N N 209 LYS CA HA sing N N 210 LYS C O doub N N 211 LYS C OXT sing N N 212 LYS CB CG sing N N 213 LYS CB HB2 sing N N 214 LYS CB HB3 sing N N 215 LYS CG CD sing N N 216 LYS CG HG2 sing N N 217 LYS CG HG3 sing N N 218 LYS CD CE sing N N 219 LYS CD HD2 sing N N 220 LYS CD HD3 sing N N 221 LYS CE NZ sing N N 222 LYS CE HE2 sing N N 223 LYS CE HE3 sing N N 224 LYS NZ HZ1 sing N N 225 LYS NZ HZ2 sing N N 226 LYS NZ HZ3 sing N N 227 LYS OXT HXT sing N N 228 PHE N CA sing N N 229 PHE N H sing N N 230 PHE N H2 sing N N 231 PHE CA C sing N N 232 PHE CA CB sing N N 233 PHE CA HA sing N N 234 PHE C O doub N N 235 PHE C OXT sing N N 236 PHE CB CG sing N N 237 PHE CB HB2 sing N N 238 PHE CB HB3 sing N N 239 PHE CG CD1 doub Y N 240 PHE CG CD2 sing Y N 241 PHE CD1 CE1 sing Y N 242 PHE CD1 HD1 sing N N 243 PHE CD2 CE2 doub Y N 244 PHE CD2 HD2 sing N N 245 PHE CE1 CZ doub Y N 246 PHE CE1 HE1 sing N N 247 PHE CE2 CZ sing Y N 248 PHE CE2 HE2 sing N N 249 PHE CZ HZ sing N N 250 PHE OXT HXT sing N N 251 PRO N CA sing N N 252 PRO N CD sing N N 253 PRO N H sing N N 254 PRO CA C sing N N 255 PRO CA CB sing N N 256 PRO CA HA sing N N 257 PRO C O doub N N 258 PRO C OXT sing N N 259 PRO CB CG sing N N 260 PRO CB HB2 sing N N 261 PRO CB HB3 sing N N 262 PRO CG CD sing N N 263 PRO CG HG2 sing N N 264 PRO CG HG3 sing N N 265 PRO CD HD2 sing N N 266 PRO CD HD3 sing N N 267 PRO OXT HXT sing N N 268 SER N CA sing N N 269 SER N H sing N N 270 SER N H2 sing N N 271 SER CA C sing N N 272 SER CA CB sing N N 273 SER CA HA sing N N 274 SER C O doub N N 275 SER C OXT sing N N 276 SER CB OG sing N N 277 SER CB HB2 sing N N 278 SER CB HB3 sing N N 279 SER OG HG sing N N 280 SER OXT HXT sing N N 281 THR N CA sing N N 282 THR N H sing N N 283 THR N H2 sing N N 284 THR CA C sing N N 285 THR CA CB sing N N 286 THR CA HA sing N N 287 THR C O doub N N 288 THR C OXT sing N N 289 THR CB OG1 sing N N 290 THR CB CG2 sing N N 291 THR CB HB sing N N 292 THR OG1 HG1 sing N N 293 THR CG2 HG21 sing N N 294 THR CG2 HG22 sing N N 295 THR CG2 HG23 sing N N 296 THR OXT HXT sing N N 297 TRP N CA sing N N 298 TRP N H sing N N 299 TRP N H2 sing N N 300 TRP CA C sing N N 301 TRP CA CB sing N N 302 TRP CA HA sing N N 303 TRP C O doub N N 304 TRP C OXT sing N N 305 TRP CB CG sing N N 306 TRP CB HB2 sing N N 307 TRP CB HB3 sing N N 308 TRP CG CD1 doub Y N 309 TRP CG CD2 sing Y N 310 TRP CD1 NE1 sing Y N 311 TRP CD1 HD1 sing N N 312 TRP CD2 CE2 doub Y N 313 TRP CD2 CE3 sing Y N 314 TRP NE1 CE2 sing Y N 315 TRP NE1 HE1 sing N N 316 TRP CE2 CZ2 sing Y N 317 TRP CE3 CZ3 doub Y N 318 TRP CE3 HE3 sing N N 319 TRP CZ2 CH2 doub Y N 320 TRP CZ2 HZ2 sing N N 321 TRP CZ3 CH2 sing Y N 322 TRP CZ3 HZ3 sing N N 323 TRP CH2 HH2 sing N N 324 TRP OXT HXT sing N N 325 TYR N CA sing N N 326 TYR N H sing N N 327 TYR N H2 sing N N 328 TYR CA C sing N N 329 TYR CA CB sing N N 330 TYR CA HA sing N N 331 TYR C O doub N N 332 TYR C OXT sing N N 333 TYR CB CG sing N N 334 TYR CB HB2 sing N N 335 TYR CB HB3 sing N N 336 TYR CG CD1 doub Y N 337 TYR CG CD2 sing Y N 338 TYR CD1 CE1 sing Y N 339 TYR CD1 HD1 sing N N 340 TYR CD2 CE2 doub Y N 341 TYR CD2 HD2 sing N N 342 TYR CE1 CZ doub Y N 343 TYR CE1 HE1 sing N N 344 TYR CE2 CZ sing Y N 345 TYR CE2 HE2 sing N N 346 TYR CZ OH sing N N 347 TYR OH HH sing N N 348 TYR OXT HXT sing N N 349 VAL N CA sing N N 350 VAL N H sing N N 351 VAL N H2 sing N N 352 VAL CA C sing N N 353 VAL CA CB sing N N 354 VAL CA HA sing N N 355 VAL C O doub N N 356 VAL C OXT sing N N 357 VAL CB CG1 sing N N 358 VAL CB CG2 sing N N 359 VAL CB HB sing N N 360 VAL CG1 HG11 sing N N 361 VAL CG1 HG12 sing N N 362 VAL CG1 HG13 sing N N 363 VAL CG2 HG21 sing N N 364 VAL CG2 HG22 sing N N 365 VAL CG2 HG23 sing N N 366 VAL OXT HXT sing N N 367 # 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 B 2 BGC 1 B BGC 1 A BGC 701 n B 2 BGC 2 B BGC 2 A BGC 702 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 # _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 DGlcpb1-3DGlcpb1-ROH 'Glycam Condensed Sequence' GMML 1.0 2 2 'WURCS=2.0/1,2,1/[a2122h-1b_1-5]/1-1/a3-b1' WURCS PDB2Glycan 1.1.0 3 2 '[][b-D-Glcp]{[(3+1)][b-D-Glcp]{}}' 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 BGC _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 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _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 BGC 2 n # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'CHLORIDE ION' CL 4 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3APA _pdbx_initial_refinement_model.details ? #