data_wwPDB_remediated_restraints_file_for_PDB_entry_2muz # This wwPDB archive file contains, for PDB entry 2muz: # # - 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. ####################### # Entry information # ####################### save_entry_information _Entry.Sf_category entry_information _Entry.Sf_framecode entry_information _Entry.ID rr_2muz _Entry.Title 'wwPDB remediated NMR restraints for PDB entry 2muz' _Entry.Version_type original _Entry.NMR_STAR_version 3.1.0.8 _Entry.Experimental_method NMR _Entry.Experimental_method_subtype solution _Entry.Details 'Contains the remediated restraint lists and coordinates for PDB entry 2muz' _Entry.PDB_coordinate_file_version 3.20 loop_ _Related_entries.Database_name _Related_entries.Database_accession_code _Related_entries.Relationship _Related_entries.Entry_ID PDB 2muz 'Master copy' rr_2muz stop_ save_ ############################################# # Molecular system (assembly) description # ############################################# save_assembly _Assembly.Sf_category assembly _Assembly.Sf_framecode assembly _Assembly.Entry_ID rr_2muz _Assembly.ID 1 _Assembly.Name 2muz _Assembly.Number_of_components 4 _Assembly.Organic_ligands 0 _Assembly.Metal_ions 0 _Assembly.Non_standard_bonds no _Assembly.Paramagnetic no _Assembly.Thiol_state 'not present' _Assembly.Molecular_mass 11813.265212 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 'designed rocker protein' 1 $designed_rocker_protein A . no . . . . . . rr_2muz 1 2 'designed rocker protein' 1 $designed_rocker_protein B . no . . . . . . rr_2muz 1 3 'designed rocker protein' 1 $designed_rocker_protein C . no . . . . . . rr_2muz 1 4 'designed rocker protein' 1 $designed_rocker_protein D . no . . . . . . rr_2muz 1 stop_ save_ #################################### # Biological polymers and ligands # #################################### save_designed_rocker_protein _Entity.Sf_category entity _Entity.Sf_framecode designed_rocker_protein _Entity.Entry_ID rr_2muz _Entity.ID 1 _Entity.Name designed_rocker_protein _Entity.Type polymer _Entity.Polymer_type polypeptide(L) _Entity.Polymer_strand_ID A,B,C,D _Entity.Polymer_seq_one_letter_code ; YYKEIAHALFSALXALSELY IAVRYX ; _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_monomer yes _Entity.Nstd_chirality yes _Entity.Nstd_linkage yes _Entity.Number_of_monomers 26 _Entity.Paramagnetic no _Entity.Thiol_state 'not present' _Entity.Parent_entity_ID 1 _Entity.Formula_weight 2953.316303 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 . TYR . rr_2muz 1 2 . TYR . rr_2muz 1 3 . LYS . rr_2muz 1 4 . GLU . rr_2muz 1 5 . ILE . rr_2muz 1 6 . ALA . rr_2muz 1 7 . HIS . rr_2muz 1 8 . ALA . rr_2muz 1 9 . LEU . rr_2muz 1 10 . PHE . rr_2muz 1 11 . SER . rr_2muz 1 12 . ALA . rr_2muz 1 13 . LEU . rr_2muz 1 14 . . . rr_2muz 1 15 . ALA . rr_2muz 1 16 . LEU . rr_2muz 1 17 . SER . rr_2muz 1 18 . GLU . rr_2muz 1 19 . LEU . rr_2muz 1 20 . TYR . rr_2muz 1 21 . ILE . rr_2muz 1 22 . ALA . rr_2muz 1 23 . VAL . rr_2muz 1 24 . ARG . rr_2muz 1 25 . TYR . rr_2muz 1 26 . NH2 . rr_2muz 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 . TYR 1 1 rr_2muz 1 . TYR 2 2 rr_2muz 1 . LYS 3 3 rr_2muz 1 . GLU 4 4 rr_2muz 1 . ILE 5 5 rr_2muz 1 . ALA 6 6 rr_2muz 1 . HIS 7 7 rr_2muz 1 . ALA 8 8 rr_2muz 1 . LEU 9 9 rr_2muz 1 . PHE 10 10 rr_2muz 1 . SER 11 11 rr_2muz 1 . ALA 12 12 rr_2muz 1 . LEU 13 13 rr_2muz 1 . . 14 14 rr_2muz 1 . ALA 15 15 rr_2muz 1 . LEU 16 16 rr_2muz 1 . SER 17 17 rr_2muz 1 . GLU 18 18 rr_2muz 1 . LEU 19 19 rr_2muz 1 . TYR 20 20 rr_2muz 1 . ILE 21 21 rr_2muz 1 . ALA 22 22 rr_2muz 1 . VAL 23 23 rr_2muz 1 . ARG 24 24 rr_2muz 1 . TYR 25 25 rr_2muz 1 . NH2 26 26 rr_2muz 1 stop_ save_ ################################# # Polymer residues and ligands # ################################# save_chem_comp_PFF _Chem_comp.Sf_category chem_comp _Chem_comp.Sf_framecode chem_comp_PFF _Chem_comp.Entry_ID rr_2muz _Chem_comp.ID 1 _Chem_comp.Name Pff _Chem_comp.Type 'L-peptide linking' _Chem_comp.Formal_charge 0 _Chem_comp.Paramagnetic no _Chem_comp.Aromatic no _Chem_comp.Formula 'C9 F N O' _Chem_comp.Formula_weight 157.103503 save_ save_chem_comp_NH2 _Chem_comp.Sf_category chem_comp _Chem_comp.Sf_framecode chem_comp_NH2 _Chem_comp.Entry_ID rr_2muz _Chem_comp.ID NH2 _Chem_comp.Name 'AMINO GROUP' _Chem_comp.Type non-polymer _Chem_comp.PDB_code NH2 _Chem_comp.Formal_charge 0 _Chem_comp.Paramagnetic no _Chem_comp.Aromatic no _Chem_comp.Formula 'H2 N' _Chem_comp.Formula_weight 16.0225 save_ ############################## # Structure determinations # ############################## ########################## # Conformer statistics # ########################## save_conformer_statistics _Conformer_stat_list.Sf_category conformer_statistics _Conformer_stat_list.Sf_framecode conformer_statistics _Conformer_stat_list.Entry_ID rr_2muz _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 1 save_ ########################### # Constraint Statistics # ########################### save_constraint_statistics _Constraint_stat_list.Sf_framecode constraint_statistics _Constraint_stat_list.Sf_category constraint_statistics _Constraint_stat_list.Entry_ID rr_2muz _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 2muz.mr . . 'MR format' 1 comment 'Not applicable' 'Not applicable' 0 rr_2muz 1 1 2muz.mr . . XPLOR/CNS 2 distance 'general distance' ambi 2 rr_2muz 1 stop_ save_ save_CNS/XPLOR_distance_constraints_2 _Gen_dist_constraint_list.Sf_category general_distance_constraints _Gen_dist_constraint_list.Sf_framecode CNS/XPLOR_distance_constraints_2 _Gen_dist_constraint_list.Entry_ID rr_2muz _Gen_dist_constraint_list.ID 1 _Gen_dist_constraint_list.Constraint_type 'general distance' _Gen_dist_constraint_list.Details 'Generated by Wattos' _Gen_dist_constraint_list.Constraint_file_ID 1 _Gen_dist_constraint_list.Block_ID 2 loop_ _Gen_dist_constraint_software.Software_ID _Gen_dist_constraint_software.Software_label _Gen_dist_constraint_software.Method_ID _Gen_dist_constraint_software.Method_label _Gen_dist_constraint_software.Entry_ID _Gen_dist_constraint_software.Gen_dist_constraint_list_ID . . . . rr_2muz 1 stop_ loop_ _Gen_dist_constraint_parse_err.ID _Gen_dist_constraint_parse_err.Content _Gen_dist_constraint_parse_err.Begin_line _Gen_dist_constraint_parse_err.Begin_column _Gen_dist_constraint_parse_err.End_line _Gen_dist_constraint_parse_err.End_column _Gen_dist_constraint_parse_err.Entry_ID _Gen_dist_constraint_parse_err.Gen_dist_constraint_list_ID 1 '# Model-independent best-fit of the data using a rectangular structure gives a short distance of 8+-1 A and a long distance of 13 (+2 and -1) A.So, it is a combination of 7-9 A with 12-15A.' 1 1 1 190 rr_2muz 1 2 'Entry H atom name Submitted Coord H atom name' 15 3 15 55 rr_2muz 1 stop_ loop_ _Gen_dist_constraint_comment_org.ID _Gen_dist_constraint_comment_org.Comment_text _Gen_dist_constraint_comment_org.Comment_begin_line _Gen_dist_constraint_comment_org.Comment_begin_column _Gen_dist_constraint_comment_org.Comment_end_line _Gen_dist_constraint_comment_org.Comment_end_column _Gen_dist_constraint_comment_org.Entry_ID _Gen_dist_constraint_comment_org.Gen_dist_constraint_list_ID 1 'a short distance of 8+-1 A' 3 1 3 29 rr_2muz 1 2 'a long distance of 13 (+2 and -1) A' 9 1 9 38 rr_2muz 1 stop_ loop_ _Gen_dist_constraint_conv_err.ID _Gen_dist_constraint_conv_err.Gen_dist_constraint_parse_file_ID _Gen_dist_constraint_conv_err.Parse_file_constraint_ID _Gen_dist_constraint_conv_err.Conv_error_type _Gen_dist_constraint_conv_err.Conv_error_note _Gen_dist_constraint_conv_err.Entry_ID _Gen_dist_constraint_conv_err.Gen_dist_constraint_list_ID 1 2 1 1 "Not handling restraint 1, item 1, resonance(s) 'a.14.F19' (nmrStar names),'b.14.F19' (nmrStar names) not linked" rr_2muz 1 2 2 1 1 "Not handling restraint 1, item 1, resonance(s) 'a.14.F19' (nmrStar names),'c.14.F19' (nmrStar names) not linked" rr_2muz 1 3 2 1 1 "Not handling restraint 1, item 1, resonance(s) 'a.14.F19' (nmrStar names),'d.14.F19' (nmrStar names) not linked" rr_2muz 1 4 2 2 1 "Not handling restraint 2, item 1, resonance(s) 'a.14.F19' (nmrStar names),'b.14.F19' (nmrStar names) not linked" rr_2muz 1 5 2 2 1 "Not handling restraint 2, item 1, resonance(s) 'a.14.F19' (nmrStar names),'c.14.F19' (nmrStar names) not linked" rr_2muz 1 6 2 2 1 "Not handling restraint 2, item 1, resonance(s) 'a.14.F19' (nmrStar names),'d.14.F19' (nmrStar names) not linked" rr_2muz 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_2muz _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 DE NOVO PROTEIN 18-SEP-14 2MUZ *TITLE SSNMR STRUCTURE OF A DESIGNED ROCKER PROTEIN *COMPND MOL_ID: 1; *COMPND 2 MOLECULE: DESIGNED ROCKER PROTEIN; *COMPND 3 CHAIN: A, B, C, D; *COMPND 4 ENGINEERED: YES *SOURCE MOL_ID: 1; *SOURCE 2 SYNTHETIC: YES; *SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; *SOURCE 4 ORGANISM_TAXID: 32630 *KEYWDS SSNMR, ROCKER PROTEIN, DE NOVO DESGIN, DE NOVO PROTEIN *EXPDTA SOLUTION NMR *NUMMDL 1 *AUTHOR T.WANG, N.JOH, Y.WU, W.F.DEGRADO, M.HONG *REVDAT 1 24-DEC-14 2MUZ 0' save_