data_wwPDB_remediated_restraints_file_for_PDB_entry_1zq3 # This wwPDB archive file contains, for PDB entry 1zq3: # # - Sequence information from the PDB mmCIF file # - NMR restraints from the PDB MR file # # In this file, the NMR restraints share the same atom names as in the coordinate # file, and in this way can differ from the data deposited at the wwPDB. To achieve # this aim, the NMR restraints were parsed from their original format files, and # the coordinates and NMR restraints information were subsequently harmonized. # # Due to the complexity of this harmonization process, minor modifications could # have occurred to the NMR restraints information, or data could have been lost # because of parsing or conversion errors. The PDB file remains the # authoritative reference for the atomic coordinates and the originally deposited # restraints files remain the primary reference for these data. # # This file is generated as part of the wwPDB at the BioMagResBank (BMRB) in # collaboration with the PDBe (formerly MSD) group at the European # Bioinformatics Institute (EBI) and the CMBI/IMM group at the Radboud # University of Nijmegen. # # Several software packages were used to produce this file: # # - Wattos (BMRB and CMBI/IMM). # - FormatConverter and NMRStarExport (PDBe). # - CCPN framework (http://www.ccpn.ac.uk/). # # More information about this process can be found in the references below. # Please cite the original reference for this PDB entry. # # JF Doreleijers, A Nederveen, W Vranken, J Lin, AM Bonvin, R Kaptein, JL # Markley, and EL Ulrich (2005). BioMagResBank databases DOCR and FRED # containing converted and filtered sets of experimental NMR restraints and # coordinates from over 500 protein PDB structures. J. Biomol. NMR 32, 1-12. # # WF Vranken, W Boucher, TJ Stevens, RH Fogh, A Pajon, M Llinas, EL Ulrich, JL # Markley, J Ionides, ED Laue (2005). The CCPN data model for NMR spectroscopy: # development of a software pipeline. Proteins 59, 687-696. # # JF Doreleijers, WF Vranken, C Schulte, J Lin, JR Wedell, CJ Penkett, GW Vuister, # G Vriend, JL Markley, and EL Ulrich (2009). The NMR Restraints Grid at BMRB for # 5,266 Protein and Nucleic Acid PDB Entries. J Biomol. NMR 45, 389–396. save_entry_information _Entry.Sf_category entry_information _Entry.Sf_framecode entry_information _Entry.ID rr_1zq3 _Entry.Title "wwPDB remediated NMR restraints for PDB entry 1zq3" _Entry.NMR_STAR_version 3.1 _Entry.Experimental_method NMR _Entry.Experimental_method_subtype solution _Entry.Details "Contains the remediated restraint lists and coordinates for PDB entry 1zq3" save_ save_assembly _Assembly.Sf_category assembly _Assembly.Sf_framecode assembly _Assembly.Entry_ID rr_1zq3 _Assembly.ID 1 _Assembly.Name 1zq3 _Assembly.Number_of_components 3 _Assembly.Organic_ligands 0 _Assembly.Metal_ions 0 _Assembly.Non_standard_bonds no _Assembly.Paramagnetic no _Assembly.Thiol_state "not present" _Assembly.Molecular_mass 16005.12566 loop_ _Entity_assembly.ID _Entity_assembly.Entity_assembly_name _Entity_assembly.Entity_ID _Entity_assembly.Entity_label _Entity_assembly.Asym_ID _Entity_assembly.PDB_chain_ID _Entity_assembly.Experimental_data_reported _Entity_assembly.Physical_state _Entity_assembly.Conformational_isomer _Entity_assembly.Chemical_exchange_state _Entity_assembly.Magnetic_equivalence_group_code _Entity_assembly.Role _Entity_assembly.Details _Entity_assembly.Entry_ID _Entity_assembly.Assembly_ID 1 "5 D GP CP TP CP TP AP AP TP CP CP CP CP G 3" 1 $5__D__GP_CP_TP_CP_TP_AP_AP_TP_CP_CP_CP_CP_G__3_ A . no . . . . . . rr_1zq3 1 2 "5 D CP GP GP GP GP AP TP TP AP GP AP GP C 3" 3 $5__D__CP_GP_GP_GP_GP_AP_TP_TP_AP_GP_AP_GP_C__3_ B . no . . . . . . rr_1zq3 1 3 "Homeotic bicoid protein" 2 $Homeotic_bicoid_protein C . no . . . . . . rr_1zq3 1 stop_ save_ save_5__D__GP_CP_TP_CP_TP_AP_AP_TP_CP_CP_CP_CP_G__3_ _Entity.Sf_category entity _Entity.Sf_framecode 5__D__GP_CP_TP_CP_TP_AP_AP_TP_CP_CP_CP_CP_G__3_ _Entity.Entry_ID rr_1zq3 _Entity.ID 1 _Entity.Name 5__D__GP_CP_TP_CP_TP_AP_AP_TP_CP_CP_CP_CP_G__3_ _Entity.Type polymer _Entity.Polymer_type polydeoxyribonucleotide _Entity.Polymer_strand_ID A _Entity.Polymer_seq_one_letter_code GCTCTAATCCCCG _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_monomer no _Entity.Nstd_chirality yes _Entity.Nstd_linkage no _Entity.Number_of_monomers 13 _Entity.Paramagnetic no _Entity.Thiol_state "not present" _Entity.Parent_entity_ID 1 _Entity.Formula_weight 3940.46258 loop_ _Entity_comp_index.ID _Entity_comp_index.Auth_seq_ID _Entity_comp_index.Comp_ID _Entity_comp_index.Comp_label _Entity_comp_index.Entry_ID _Entity_comp_index.Entity_ID 1 . DG . rr_1zq3 1 2 . DC . rr_1zq3 1 3 . DT . rr_1zq3 1 4 . DC . rr_1zq3 1 5 . DT . rr_1zq3 1 6 . DA . rr_1zq3 1 7 . DA . rr_1zq3 1 8 . DT . rr_1zq3 1 9 . DC . rr_1zq3 1 10 . DC . rr_1zq3 1 11 . DC . rr_1zq3 1 12 . DC . rr_1zq3 1 13 . DG . rr_1zq3 1 stop_ loop_ _Entity_poly_seq.Hetero _Entity_poly_seq.Mon_ID _Entity_poly_seq.Num _Entity_poly_seq.Comp_index_ID _Entity_poly_seq.Entry_ID _Entity_poly_seq.Entity_ID . DG 1 1 rr_1zq3 1 . DC 2 2 rr_1zq3 1 . DT 3 3 rr_1zq3 1 . DC 4 4 rr_1zq3 1 . DT 5 5 rr_1zq3 1 . DA 6 6 rr_1zq3 1 . DA 7 7 rr_1zq3 1 . DT 8 8 rr_1zq3 1 . DC 9 9 rr_1zq3 1 . DC 10 10 rr_1zq3 1 . DC 11 11 rr_1zq3 1 . DC 12 12 rr_1zq3 1 . DG 13 13 rr_1zq3 1 stop_ save_ save_Homeotic_bicoid_protein _Entity.Sf_category entity _Entity.Sf_framecode Homeotic_bicoid_protein _Entity.Entry_ID rr_1zq3 _Entity.ID 2 _Entity.Name Homeotic_bicoid_protein _Entity.Type polymer _Entity.Polymer_type polypeptide(L) _Entity.Polymer_strand_ID C _Entity.Polymer_seq_one_letter_code ; GPRRTRTTFTSSQIAELEQH FLQGRYLTAPRLADLSAKLA LGTAQVKIWFKNRRRRHKIQ SDQHKDQS ; _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_monomer no _Entity.Nstd_chirality no _Entity.Nstd_linkage no _Entity.Number_of_monomers 68 _Entity.Paramagnetic no _Entity.Thiol_state "not present" _Entity.Parent_entity_ID 2 _Entity.Formula_weight 7955.0895 loop_ _Entity_comp_index.ID _Entity_comp_index.Auth_seq_ID _Entity_comp_index.Comp_ID _Entity_comp_index.Comp_label _Entity_comp_index.Entry_ID _Entity_comp_index.Entity_ID 1 . GLY . rr_1zq3 2 2 . PRO . rr_1zq3 2 3 . ARG . rr_1zq3 2 4 . ARG . rr_1zq3 2 5 . THR . rr_1zq3 2 6 . ARG . rr_1zq3 2 7 . THR . rr_1zq3 2 8 . THR . rr_1zq3 2 9 . PHE . rr_1zq3 2 10 . THR . rr_1zq3 2 11 . SER . rr_1zq3 2 12 . SER . rr_1zq3 2 13 . GLN . rr_1zq3 2 14 . ILE . rr_1zq3 2 15 . ALA . rr_1zq3 2 16 . GLU . rr_1zq3 2 17 . LEU . rr_1zq3 2 18 . GLU . rr_1zq3 2 19 . GLN . rr_1zq3 2 20 . HIS . rr_1zq3 2 21 . PHE . rr_1zq3 2 22 . LEU . rr_1zq3 2 23 . GLN . rr_1zq3 2 24 . GLY . rr_1zq3 2 25 . ARG . rr_1zq3 2 26 . TYR . rr_1zq3 2 27 . LEU . rr_1zq3 2 28 . THR . rr_1zq3 2 29 . ALA . rr_1zq3 2 30 . PRO . rr_1zq3 2 31 . ARG . rr_1zq3 2 32 . LEU . rr_1zq3 2 33 . ALA . rr_1zq3 2 34 . ASP . rr_1zq3 2 35 . LEU . rr_1zq3 2 36 . SER . rr_1zq3 2 37 . ALA . rr_1zq3 2 38 . LYS . rr_1zq3 2 39 . LEU . rr_1zq3 2 40 . ALA . rr_1zq3 2 41 . LEU . rr_1zq3 2 42 . GLY . rr_1zq3 2 43 . THR . rr_1zq3 2 44 . ALA . rr_1zq3 2 45 . GLN . rr_1zq3 2 46 . VAL . rr_1zq3 2 47 . LYS . rr_1zq3 2 48 . ILE . rr_1zq3 2 49 . TRP . rr_1zq3 2 50 . PHE . rr_1zq3 2 51 . LYS . rr_1zq3 2 52 . ASN . rr_1zq3 2 53 . ARG . rr_1zq3 2 54 . ARG . rr_1zq3 2 55 . ARG . rr_1zq3 2 56 . ARG . rr_1zq3 2 57 . HIS . rr_1zq3 2 58 . LYS . rr_1zq3 2 59 . ILE . rr_1zq3 2 60 . GLN . rr_1zq3 2 61 . SER . rr_1zq3 2 62 . ASP . rr_1zq3 2 63 . GLN . rr_1zq3 2 64 . HIS . rr_1zq3 2 65 . LYS . rr_1zq3 2 66 . ASP . rr_1zq3 2 67 . GLN . rr_1zq3 2 68 . SER . rr_1zq3 2 stop_ loop_ _Entity_poly_seq.Hetero _Entity_poly_seq.Mon_ID _Entity_poly_seq.Num _Entity_poly_seq.Comp_index_ID _Entity_poly_seq.Entry_ID _Entity_poly_seq.Entity_ID . GLY 1 1 rr_1zq3 2 . PRO 2 2 rr_1zq3 2 . ARG 3 3 rr_1zq3 2 . ARG 4 4 rr_1zq3 2 . THR 5 5 rr_1zq3 2 . ARG 6 6 rr_1zq3 2 . THR 7 7 rr_1zq3 2 . THR 8 8 rr_1zq3 2 . PHE 9 9 rr_1zq3 2 . THR 10 10 rr_1zq3 2 . SER 11 11 rr_1zq3 2 . SER 12 12 rr_1zq3 2 . GLN 13 13 rr_1zq3 2 . ILE 14 14 rr_1zq3 2 . ALA 15 15 rr_1zq3 2 . GLU 16 16 rr_1zq3 2 . LEU 17 17 rr_1zq3 2 . GLU 18 18 rr_1zq3 2 . GLN 19 19 rr_1zq3 2 . HIS 20 20 rr_1zq3 2 . PHE 21 21 rr_1zq3 2 . LEU 22 22 rr_1zq3 2 . GLN 23 23 rr_1zq3 2 . GLY 24 24 rr_1zq3 2 . ARG 25 25 rr_1zq3 2 . TYR 26 26 rr_1zq3 2 . LEU 27 27 rr_1zq3 2 . THR 28 28 rr_1zq3 2 . ALA 29 29 rr_1zq3 2 . PRO 30 30 rr_1zq3 2 . ARG 31 31 rr_1zq3 2 . LEU 32 32 rr_1zq3 2 . ALA 33 33 rr_1zq3 2 . ASP 34 34 rr_1zq3 2 . LEU 35 35 rr_1zq3 2 . SER 36 36 rr_1zq3 2 . ALA 37 37 rr_1zq3 2 . LYS 38 38 rr_1zq3 2 . LEU 39 39 rr_1zq3 2 . ALA 40 40 rr_1zq3 2 . LEU 41 41 rr_1zq3 2 . GLY 42 42 rr_1zq3 2 . THR 43 43 rr_1zq3 2 . ALA 44 44 rr_1zq3 2 . GLN 45 45 rr_1zq3 2 . VAL 46 46 rr_1zq3 2 . LYS 47 47 rr_1zq3 2 . ILE 48 48 rr_1zq3 2 . TRP 49 49 rr_1zq3 2 . PHE 50 50 rr_1zq3 2 . LYS 51 51 rr_1zq3 2 . ASN 52 52 rr_1zq3 2 . ARG 53 53 rr_1zq3 2 . ARG 54 54 rr_1zq3 2 . ARG 55 55 rr_1zq3 2 . ARG 56 56 rr_1zq3 2 . HIS 57 57 rr_1zq3 2 . LYS 58 58 rr_1zq3 2 . ILE 59 59 rr_1zq3 2 . GLN 60 60 rr_1zq3 2 . SER 61 61 rr_1zq3 2 . ASP 62 62 rr_1zq3 2 . GLN 63 63 rr_1zq3 2 . HIS 64 64 rr_1zq3 2 . LYS 65 65 rr_1zq3 2 . ASP 66 66 rr_1zq3 2 . GLN 67 67 rr_1zq3 2 . SER 68 68 rr_1zq3 2 stop_ save_ save_5__D__CP_GP_GP_GP_GP_AP_TP_TP_AP_GP_AP_GP_C__3_ _Entity.Sf_category entity _Entity.Sf_framecode 5__D__CP_GP_GP_GP_GP_AP_TP_TP_AP_GP_AP_GP_C__3_ _Entity.Entry_ID rr_1zq3 _Entity.ID 3 _Entity.Name 5__D__CP_GP_GP_GP_GP_AP_TP_TP_AP_GP_AP_GP_C__3_ _Entity.Type polymer _Entity.Polymer_type polydeoxyribonucleotide _Entity.Polymer_strand_ID B _Entity.Polymer_seq_one_letter_code CGGGGATTAGAGC _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_monomer no _Entity.Nstd_chirality yes _Entity.Nstd_linkage no _Entity.Number_of_monomers 13 _Entity.Paramagnetic no _Entity.Thiol_state "not present" _Entity.Parent_entity_ID 3 _Entity.Formula_weight 4109.57358 loop_ _Entity_comp_index.ID _Entity_comp_index.Auth_seq_ID _Entity_comp_index.Comp_ID _Entity_comp_index.Comp_label _Entity_comp_index.Entry_ID _Entity_comp_index.Entity_ID 1 . DC . rr_1zq3 3 2 . DG . rr_1zq3 3 3 . DG . rr_1zq3 3 4 . DG . rr_1zq3 3 5 . DG . rr_1zq3 3 6 . DA . rr_1zq3 3 7 . DT . rr_1zq3 3 8 . DT . rr_1zq3 3 9 . DA . rr_1zq3 3 10 . DG . rr_1zq3 3 11 . DA . rr_1zq3 3 12 . DG . rr_1zq3 3 13 . DC . rr_1zq3 3 stop_ loop_ _Entity_poly_seq.Hetero _Entity_poly_seq.Mon_ID _Entity_poly_seq.Num _Entity_poly_seq.Comp_index_ID _Entity_poly_seq.Entry_ID _Entity_poly_seq.Entity_ID . DC 1 1 rr_1zq3 3 . DG 2 2 rr_1zq3 3 . DG 3 3 rr_1zq3 3 . DG 4 4 rr_1zq3 3 . DG 5 5 rr_1zq3 3 . DA 6 6 rr_1zq3 3 . DT 7 7 rr_1zq3 3 . DT 8 8 rr_1zq3 3 . DA 9 9 rr_1zq3 3 . DG 10 10 rr_1zq3 3 . DA 11 11 rr_1zq3 3 . DG 12 12 rr_1zq3 3 . DC 13 13 rr_1zq3 3 stop_ save_ save_conformer_statistics _Conformer_stat_list.Sf_category conformer_statistics _Conformer_stat_list.Sf_framecode conformer_statistics _Conformer_stat_list.Entry_ID rr_1zq3 _Conformer_stat_list.ID 1 _Conformer_stat_list.Conf_family_coord_set_ID 1 _Conformer_stat_list.Conf_family_coord_set_label $Original_constraints_and_structures _Conformer_stat_list.Conformer_submitted_total_num 20 save_ save_global_Org_file_characteristics _Constraint_stat_list.Sf_framecode global_Org_file_characteristics _Constraint_stat_list.Sf_category constraint_statistics _Constraint_stat_list.Entry_ID rr_1zq3 _Constraint_stat_list.ID 1 loop_ _Constraint_file.ID _Constraint_file.Constraint_filename _Constraint_file.Software_ID _Constraint_file.Software_label _Constraint_file.Software_name _Constraint_file.Block_ID _Constraint_file.Constraint_type _Constraint_file.Constraint_subtype _Constraint_file.Constraint_subsubtype _Constraint_file.Constraint_number _Constraint_file.Entry_ID _Constraint_file.Constraint_stat_list_ID 1 1zq3.mr . . "MR format" 1 comment "Not applicable" "Not applicable" 0 rr_1zq3 1 1 1zq3.mr . . "MR format" 2 distance NOE simple 0 rr_1zq3 1 1 1zq3.mr . . "MR format" 3 "nomenclature mapping" "Not applicable" "Not applicable" 0 rr_1zq3 1 stop_ save_ save_MR_file_comment_1 _Org_constr_file_comment.Sf_framecode MR_file_comment_1 _Org_constr_file_comment.Sf_category org_constr_file_comment _Org_constr_file_comment.Entry_ID rr_1zq3 _Org_constr_file_comment.ID 1 _Org_constr_file_comment.Constraint_file_ID 1 _Org_constr_file_comment.Block_ID 1 _Org_constr_file_comment.Details "Generated by Wattos" _Org_constr_file_comment.Comment ; *HEADER TRANSCRIPTION/DNA 18-MAY-05 1ZQ3 *TITLE NMR SOLUTION STRUCTURE OF THE BICOID HOMEODOMAIN BOUND TO *TITLE 2 THE CONSENSUS DNA BINDING SITE TAATCC *COMPND MOL_ID: 1; *COMPND 2 MOLECULE: HOMEOTIC BICOID PROTEIN; *COMPND 3 CHAIN: P; *COMPND 4 FRAGMENT: HOMEODOMAIN (RESIDUES 97-163); *COMPND 5 SYNONYM: PRD-4; *COMPND 6 ENGINEERED: YES; *COMPND 7 MOL_ID: 2; *COMPND 8 MOLECULE: 5'-D(*GP*CP*TP*CP*TP*AP*AP*TP*CP*CP*CP*CP*G)-3'; *COMPND 9 CHAIN: A; *COMPND 10 ENGINEERED: YES; *COMPND 11 OTHER_DETAILS: CONSENSUS DNA BINDING SITE SENSE STRAND; *COMPND 12 MOL_ID: 3; *COMPND 13 MOLECULE: 5'-D(*CP*GP*GP*GP*GP*AP*TP*TP*AP*GP*AP*GP*C)-3'; *COMPND 14 CHAIN: B; *COMPND 15 ENGINEERED: YES; *COMPND 16 OTHER_DETAILS: CONSENSUS DNA BINDING SITE ANTI-SENSE STRAND *SOURCE MOL_ID: 1; *SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; *SOURCE 3 ORGANISM_COMMON: FRUIT FLY; *SOURCE 4 GENE: BCD; *SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; *SOURCE 6 EXPRESSION_SYSTEM_COMMON: BACTERIA; *SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21STAR; *SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; *SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET41A-NOVAGEN; *SOURCE 10 MOL_ID: 2; *SOURCE 11 SYNTHETIC: YES; *SOURCE 12 MOL_ID: 3; *SOURCE 13 SYNTHETIC: YES *KEYWDS PROTEIN-DNA COMPLEX, DOUBLE HELIX, HELIX-TURN-HELIX, *KEYWDS 2 HOMEODOMAIN, DNA-BINDING DOMAIN, K50, RECOGNITION HELIX, *KEYWDS 3 TRANSCRIPTION FACTOR, TRANSLATIONAL CONTROL *EXPDTA NMR, 20 STRUCTURES *AUTHOR J.M.BAIRD-TITUS, M.RANCE, K.CLARK-BALDWIN, J.MA, D.VRUSHANK *REVDAT 1 14-FEB-06 1ZQ3 0 ; save_