data_1AIK # _entry.id 1AIK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 1AIK WWPDB D_1000170860 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1AIK _pdbx_database_status.recvd_initial_deposition_date 1997-04-20 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site ? _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chan, D.C.' 1 'Fass, D.' 2 'Berger, J.M.' 3 'Kim, P.S.' 4 # _citation.id primary _citation.title 'Core structure of gp41 from the HIV envelope glycoprotein.' _citation.journal_abbrev 'Cell(Cambridge,Mass.)' _citation.journal_volume 89 _citation.page_first 263 _citation.page_last 273 _citation.year 1997 _citation.journal_id_ASTM CELLB5 _citation.country US _citation.journal_id_ISSN 0092-8674 _citation.journal_id_CSD 0998 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9108481 _citation.pdbx_database_id_DOI '10.1016/S0092-8674(00)80205-6' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Chan, D.C.' 1 primary 'Fass, D.' 2 primary 'Berger, J.M.' 3 primary 'Kim, P.S.' 4 # _cell.entry_id 1AIK _cell.length_a 49.500 _cell.length_b 49.500 _cell.length_c 55.300 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AIK _symmetry.space_group_name_H-M 'P 3 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 # 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 'HIV-1 GP41 GLYCOPROTEIN' 4152.843 1 ? ? 'PROTEASE-RESISTANT CORE' 'N36 AND C34 ARE SYNTHETIC PEPTIDES' 2 polymer man 'HIV-1 GP41 GLYCOPROTEIN' 4277.615 1 ? ? 'PROTEASE-RESISTANT CORE' 'N36 AND C34 ARE SYNTHETIC PEPTIDES' 3 water nat water 18.015 43 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no yes '(ACE)SGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL' XSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL N ? 2 'polypeptide(L)' no yes '(ACE)WMEWDREINNYTSLIHSLIEESQNQQEKNEQELL' XWMEWDREINNYTSLIHSLIEESQNQQEKNEQELL C ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ACE n 1 2 SER n 1 3 GLY n 1 4 ILE n 1 5 VAL n 1 6 GLN n 1 7 GLN n 1 8 GLN n 1 9 ASN n 1 10 ASN n 1 11 LEU n 1 12 LEU n 1 13 ARG n 1 14 ALA n 1 15 ILE n 1 16 GLU n 1 17 ALA n 1 18 GLN n 1 19 GLN n 1 20 HIS n 1 21 LEU n 1 22 LEU n 1 23 GLN n 1 24 LEU n 1 25 THR n 1 26 VAL n 1 27 TRP n 1 28 GLY n 1 29 ILE n 1 30 LYS n 1 31 GLN n 1 32 LEU n 1 33 GLN n 1 34 ALA n 1 35 ARG n 1 36 ILE n 1 37 LEU n 2 1 ACE n 2 2 TRP n 2 3 MET n 2 4 GLU n 2 5 TRP n 2 6 ASP n 2 7 ARG n 2 8 GLU n 2 9 ILE n 2 10 ASN n 2 11 ASN n 2 12 TYR n 2 13 THR n 2 14 SER n 2 15 LEU n 2 16 ILE n 2 17 HIS n 2 18 SER n 2 19 LEU n 2 20 ILE n 2 21 GLU n 2 22 GLU n 2 23 SER n 2 24 GLN n 2 25 ASN n 2 26 GLN n 2 27 GLN n 2 28 GLU n 2 29 LYS n 2 30 ASN n 2 31 GLU n 2 32 GLN n 2 33 GLU n 2 34 LEU n 2 35 LEU n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _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 _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _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 _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _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 _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _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 _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 _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample ? ? ? ? Lentivirus GP41 'Human immunodeficiency virus 1' HXB2 ? ? ? ? 'HIV-1 M:B_HXB2R' 11706 ? ? ? ? ? ? 'VIRAL MEMBRANE' ? 'Escherichia coli' 562 Escherichia GP41 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? ? ? Lentivirus GP41 'Human immunodeficiency virus 1' HXB2 ? ? ? ? 'HIV-1 M:B_HXB2R' 11706 ? ? ? ? ? ? 'VIRAL MEMBRANE' ? 'Escherichia coli' 562 Escherichia GP41 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.entity_id _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 UNP ENV_HV1H2 1 P04578 1 ;MRVKEKYQHLWRWGWKWGIMLLGILMICSATENLWVTVYYGVPVWKEATTTLFCASDAKAYDTEVHNVCATHACVPTDPN PQEVILVNVTENFDMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVNLKCTDLKNDTNTNSSNGRMIMEKGEIKNCSFN ISTSIRNKVQKEYAFFYKLDIRPIDNTTYRLISCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKTFNGTGPCTNV STVQCTHGIRPVVSTQLLLNGSLAEEEGVIRSANFTDNAKTIIVQLNTSVEINCTRPNNNTRKSIRIQRGPGRAFVTIGK IGNMRQAHCNISRAKWMSTLKQIASKLREQFGNNKTVIFKQSSGGDPEIVTHSFNCGGEFFYCNSTQLFNSTWFNSTWST EGSNNTEGSDTITLPCRIKQFINMWQEVGKAMYAPPISGQIRCSSNITGLLLTRDGGKNTNESEVFRPGGGDMRDNWRSE LYKYKVVKIETLGVAPTKAKRRVVQREKRAVGIGALFLGFLGAAGSTMGAASMTLTVQARQLLSGIVQQQNNLLRAIEAQ QHLLQLTVWGIKQLQARILAVERYLKDQQLLGIWGCSGKLICTTAVPWNASWSNKSLEQFWNNMTWMEWDREINNYTSLI HSLIDESQNQQEKNEQELLELDKWASLWNWFNITNWLWYIKIFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLP NRGGPDRPEGIEEEGGERDRDRSVRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQY WSQELKNSAVSLLNATAIAVAEGTDRVIEVVQGAYRAIRHIPRRIRQGLERIL ; ? 2 UNP ENV_HV1H2 2 P04578 1 ;MRVKEKYQHLWRWGWRWGTMLLGMLMICSATEKLWVTVYFGVPVWKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPN PQEVVLVNVTENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVSLKCTDLKNDTNTNSSSGRMIMEKGEIKNCSFN ISTSKRGKVQKEYAFFYKLDIIPIDNDTTSYTLTSCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNNKTFNGTGPCT NVSTVQCTHGIRPVVSTQLLLNGSLAEEEVVIRSVNFTDNAKTIIVQLDTSVEINCTRPNNNTRKKIRIQRGPGRAFVTI GKIGNMRQAHCNISRAKWNATLKQIDSKLREQFGNNKTIIFKQSSGGDPEIVTHSFNCGGEFFYCNSTQLFNSTWSTKGS NNTEGSDTITLPCRIKQIINMWQEVGKAMYAPPISGQIRCSSNITGLLLTRDGGNSNNESEIFRPGGGDMRDNWRSELYK YKVVKIEPLGVAPTKAKRRVVQREKRAVGIGALFLGFLGAAGSTMGAASMTLTVQARQLLSGIVQQQNNLLRAIEGQQHL LQLTVWGIKQLQARILAVERYLKDQQLLGIWGCSGKLICTTAVPWNASWSNKSLEQIWNNMTWMEWDREINNYTSLIHSL IEESQNQQEKNEQELLELDKWASLWNWFNITNWLWYIKLFIMIVGGLVGLRIVFAVLSIVNRVRQGYSPLSFQTHLPNPR GPDRPEGIEEEGGERDRDRSIRLVNGSLALIWDDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEALKYWWNLLQYWSQ ELKNSAVNLLNATAIAVAEGTDRVIELVQAAYRAIRHIPRRIRQGLERILL ; ? # 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 1AIK N 2 ? 37 ? P04578 544 ? 579 ? 546 581 2 2 1AIK C 2 ? 35 ? P04578 623 ? 656 ? 628 661 # 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 ACE non-polymer . 'ACETYL GROUP' ? 'C2 H4 O' 44.053 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 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 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 1AIK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.32 _exptl_crystal.density_percent_sol 46. _exptl_crystal.description ;DATA AT NSLS USED MAD METHODS. DATA COLLECTED ON AN OSMIUM-SOAK CRYSTAL AT WAVELENGTHS 1.1398, 1.1396, 1.1344, AND 1.1406 ANGSTROMS. ; # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;A 10 MG/ML STOCK WAS DILUTED 1:1 IN A SITTING DROP WITH 80 MM NH4CL, 20% PEG200, AND 50% ISOPROPANOL, AND THEN ALLOWED TO EQUILIBRATE AGAINST 80 MM NH4CL, 20% PEG200, AND 30% ISOPROPANOL., pH 6.0, vapor diffusion - sitting drop ; # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IIC' _diffrn_detector.pdbx_collection_date 1997-03 _diffrn_detector.details MIRRORS # _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 ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RUH2R' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1AIK _reflns.observed_criterion_sigma_I 1.5 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 2.0 _reflns.number_obs 5287 _reflns.number_all ? _reflns.percent_possible_obs 96.5 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.0540000 _reflns.pdbx_netI_over_sigmaI 18.4 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.00 _reflns_shell.d_res_low 2.07 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.2630000 _reflns_shell.meanI_over_sigI_obs 5.4 _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1AIK _refine.ls_number_reflns_obs 5683 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_data_cutoff_high_absF 100000000. _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 12.0 _refine.ls_d_res_high 2.0 _refine.ls_percent_reflns_obs 96.5 _refine.ls_R_factor_obs 0.2380000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2380000 _refine.ls_R_factor_R_free 0.2660000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 7.12 _refine.ls_number_reflns_R_free 371 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _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_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 594 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 43 _refine_hist.number_atoms_total 637 _refine_hist.d_res_high 2.0 _refine_hist.d_res_low 12.0 # 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 x_bond_d 0.014 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 2.742 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _struct.entry_id 1AIK _struct.title 'HIV GP41 CORE STRUCTURE' _struct.pdbx_descriptor 'HIV-1 GP41 GLYCOPROTEIN' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1AIK _struct_keywords.pdbx_keywords 'VIRAL PROTEIN' _struct_keywords.text 'HIV, GP41, ENVELOPE GLYCOPROTEIN, RETROVIRUS, Viral 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 ? # _struct_biol.id 1 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLY A 3 ? ALA A 34 ? GLY N 547 ALA N 578 1 ? 32 HELX_P HELX_P2 2 MET B 3 ? GLU B 33 ? MET C 629 GLU C 659 1 ? 31 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # 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 covale1 covale ? ? A ACE 1 C ? ? ? 1_555 A SER 2 N ? ? N ACE 545 N SER 546 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale ? ? B ACE 1 C ? ? ? 1_555 B TRP 2 N ? ? C ACE 627 C TRP 628 1_555 ? ? ? ? ? ? ? 1.328 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 1AIK _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 1AIK _atom_sites.fract_transf_matrix[1][1] 0.020202 _atom_sites.fract_transf_matrix[1][2] 0.011664 _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] 0.023327 _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] 0.018083 _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 H N O S # 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 ACE 1 545 0 ACE ACE N . n A 1 2 SER 2 546 546 SER SER N . n A 1 3 GLY 3 547 547 GLY GLY N . n A 1 4 ILE 4 548 548 ILE ILE N . n A 1 5 VAL 5 549 549 VAL VAL N . n A 1 6 GLN 6 550 550 GLN GLN N . n A 1 7 GLN 7 551 551 GLN GLN N . n A 1 8 GLN 8 552 552 GLN GLN N . n A 1 9 ASN 9 553 553 ASN ASN N . n A 1 10 ASN 10 554 554 ASN ASN N . n A 1 11 LEU 11 555 555 LEU LEU N . n A 1 12 LEU 12 556 556 LEU LEU N . n A 1 13 ARG 13 557 557 ARG ARG N . n A 1 14 ALA 14 558 558 ALA ALA N . n A 1 15 ILE 15 559 559 ILE ILE N . n A 1 16 GLU 16 560 560 GLU GLU N . n A 1 17 ALA 17 561 561 ALA ALA N . n A 1 18 GLN 18 562 562 GLN GLN N . n A 1 19 GLN 19 563 563 GLN GLN N . n A 1 20 HIS 20 564 564 HIS HIS N . n A 1 21 LEU 21 565 565 LEU LEU N . n A 1 22 LEU 22 566 566 LEU LEU N . n A 1 23 GLN 23 567 567 GLN GLN N . n A 1 24 LEU 24 568 568 LEU LEU N . n A 1 25 THR 25 569 569 THR THR N . n A 1 26 VAL 26 570 570 VAL VAL N . n A 1 27 TRP 27 571 571 TRP TRP N . n A 1 28 GLY 28 572 572 GLY GLY N . n A 1 29 ILE 29 573 573 ILE ILE N . n A 1 30 LYS 30 574 574 LYS LYS N . n A 1 31 GLN 31 575 575 GLN GLN N . n A 1 32 LEU 32 576 576 LEU LEU N . n A 1 33 GLN 33 577 577 GLN GLN N . n A 1 34 ALA 34 578 578 ALA ALA N . n A 1 35 ARG 35 579 579 ARG ARG N . n A 1 36 ILE 36 580 580 ILE ILE N . n A 1 37 LEU 37 581 581 LEU LEU N . n B 2 1 ACE 1 627 0 ACE ACE C . n B 2 2 TRP 2 628 628 TRP TRP C . n B 2 3 MET 3 629 629 MET MET C . n B 2 4 GLU 4 630 630 GLU GLU C . n B 2 5 TRP 5 631 631 TRP TRP C . n B 2 6 ASP 6 632 632 ASP ASP C . n B 2 7 ARG 7 633 633 ARG ARG C . n B 2 8 GLU 8 634 634 GLU GLU C . n B 2 9 ILE 9 635 635 ILE ILE C . n B 2 10 ASN 10 636 636 ASN ASN C . n B 2 11 ASN 11 637 637 ASN ASN C . n B 2 12 TYR 12 638 638 TYR TYR C . n B 2 13 THR 13 639 639 THR THR C . n B 2 14 SER 14 640 640 SER SER C . n B 2 15 LEU 15 641 641 LEU LEU C . n B 2 16 ILE 16 642 642 ILE ILE C . n B 2 17 HIS 17 643 643 HIS HIS C . n B 2 18 SER 18 644 644 SER SER C . n B 2 19 LEU 19 645 645 LEU LEU C . n B 2 20 ILE 20 646 646 ILE ILE C . n B 2 21 GLU 21 647 647 GLU GLU C . n B 2 22 GLU 22 648 648 GLU GLU C . n B 2 23 SER 23 649 649 SER SER C . n B 2 24 GLN 24 650 650 GLN GLN C . n B 2 25 ASN 25 651 651 ASN ASN C . n B 2 26 GLN 26 652 652 GLN GLN C . n B 2 27 GLN 27 653 653 GLN GLN C . n B 2 28 GLU 28 654 654 GLU GLU C . n B 2 29 LYS 29 655 655 LYS LYS C . n B 2 30 ASN 30 656 656 ASN ASN C . n B 2 31 GLU 31 657 657 GLU GLU C . n B 2 32 GLN 32 658 658 GLN GLN C . n B 2 33 GLU 33 659 659 GLU GLU C . n B 2 34 LEU 34 660 660 LEU LEU C . n B 2 35 LEU 35 661 661 LEU LEU C . 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 HOH 1 13 13 HOH HOH N . C 3 HOH 2 17 17 HOH HOH N . C 3 HOH 3 20 20 HOH HOH N . C 3 HOH 4 21 21 HOH HOH N . C 3 HOH 5 22 22 HOH HOH N . C 3 HOH 6 29 29 HOH HOH N . C 3 HOH 7 30 30 HOH HOH N . C 3 HOH 8 31 31 HOH HOH N . C 3 HOH 9 32 32 HOH HOH N . C 3 HOH 10 33 33 HOH HOH N . C 3 HOH 11 34 34 HOH HOH N . C 3 HOH 12 35 35 HOH HOH N . C 3 HOH 13 36 36 HOH HOH N . C 3 HOH 14 37 37 HOH HOH N . C 3 HOH 15 38 38 HOH HOH N . C 3 HOH 16 40 40 HOH HOH N . D 3 HOH 1 1 1 HOH HOH C . D 3 HOH 2 2 2 HOH HOH C . D 3 HOH 3 3 3 HOH HOH C . D 3 HOH 4 4 4 HOH HOH C . D 3 HOH 5 5 5 HOH HOH C . D 3 HOH 6 6 6 HOH HOH C . D 3 HOH 7 7 7 HOH HOH C . D 3 HOH 8 8 8 HOH HOH C . D 3 HOH 9 9 9 HOH HOH C . D 3 HOH 10 10 10 HOH HOH C . D 3 HOH 11 11 11 HOH HOH C . D 3 HOH 12 12 12 HOH HOH C . D 3 HOH 13 14 14 HOH HOH C . D 3 HOH 14 15 15 HOH HOH C . D 3 HOH 15 16 16 HOH HOH C . D 3 HOH 16 18 18 HOH HOH C . D 3 HOH 17 19 19 HOH HOH C . D 3 HOH 18 23 23 HOH HOH C . D 3 HOH 19 24 24 HOH HOH C . D 3 HOH 20 25 25 HOH HOH C . D 3 HOH 21 26 26 HOH HOH C . D 3 HOH 22 27 27 HOH HOH C . D 3 HOH 23 28 28 HOH HOH C . D 3 HOH 24 39 39 HOH HOH C . D 3 HOH 25 41 41 HOH HOH C . D 3 HOH 26 42 42 HOH HOH C . D 3 HOH 27 43 43 HOH HOH C . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # 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)' 12190 ? 1 MORE -98 ? 1 'SSA (A^2)' 10400 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5000000000 -0.8660254038 0.0000000000 49.5000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5000000000 0.8660254038 0.0000000000 24.7500000000 -0.8660254038 -0.5000000000 0.0000000000 42.8682574873 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # 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 1997-06-16 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Derived calculations' 3 3 'Structure model' 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.851 ? 1 X-PLOR refinement 3.851 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 X-PLOR phasing 3.851 ? 5 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 NE2 N HIS 564 ? ? CD2 N HIS 564 ? ? 1.291 1.373 -0.082 0.011 N 2 1 NE2 C HIS 643 ? ? CD2 C HIS 643 ? ? 1.288 1.373 -0.085 0.011 N 3 1 CB C SER 644 ? ? OG C SER 644 ? ? 1.501 1.418 0.083 0.013 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CD1 N TRP 571 ? ? CG N TRP 571 ? ? CD2 N TRP 571 ? ? 112.14 106.30 5.84 0.80 N 2 1 CE2 N TRP 571 ? ? CD2 N TRP 571 ? ? CG N TRP 571 ? ? 101.47 107.30 -5.83 0.80 N 3 1 CG N TRP 571 ? ? CD2 N TRP 571 ? ? CE3 N TRP 571 ? ? 139.94 133.90 6.04 0.90 N 4 1 NE N ARG 579 ? ? CZ N ARG 579 ? ? NH2 N ARG 579 ? ? 123.84 120.30 3.54 0.50 N 5 1 CD1 C TRP 628 ? ? CG C TRP 628 ? ? CD2 C TRP 628 ? ? 113.13 106.30 6.83 0.80 N 6 1 CE2 C TRP 628 ? ? CD2 C TRP 628 ? ? CG C TRP 628 ? ? 101.63 107.30 -5.67 0.80 N 7 1 CD1 C TRP 631 ? ? CG C TRP 631 ? ? CD2 C TRP 631 ? ? 113.70 106.30 7.40 0.80 N 8 1 CG C TRP 631 ? ? CD1 C TRP 631 ? ? NE1 C TRP 631 ? ? 103.98 110.10 -6.12 1.00 N 9 1 CE2 C TRP 631 ? ? CD2 C TRP 631 ? ? CG C TRP 631 ? ? 101.48 107.30 -5.82 0.80 N # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #