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(-) Description

Title :  STRUCTURES OF INACTIVE AND ACTIVATED DNTR PROVIDE CONCLUSIVE EVIDENCE FOR THE MECHANISM OF ACTION OF LYSR TRANSCRIPTION FACTORS
 
Authors :  M. Lerche, C. Dian, A. Round, R. Lonneborg, P. Brzezinski, G. A. Leonard
Date :  25 Aug 15  (Deposition) - 13 Jan 16  (Release) - 10 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription, Lysr-Type Transcription Regulators, Lttr, Transcription Factor, Helix-Turn-Helix, Dna Binding Protein, Rossmann-Like Fold, Autoinducing Mutant, H169T-Dntr (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Lerche, C. Dian, A. Round, R. Lonneborg, P. Brzezinski, G. A. Leonar
The Solution Configurations Of Inactive And Activated Dntr Have Implications For The Sliding Dimer Mechanism Of Lysr Transcription Factors.
Sci. Rep. V. 6 19988 2016
PubMed-ID: 26817994  |  Reference-DOI: 10.1038/SREP19988

(-) Compounds

Molecule 1 - LYSR-TYPE REGULATORY PROTEIN
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainM15
    Expression System Taxid1007065
    Expression System VariantPREP4
    Expression System VectorPQE-60
    Expression System Vector TypePLASMID
    MutationYES
    Organism ScientificBURKHOLDERIA CEPACIA
    Organism Taxid292
    StrainDNT
    SynonymDNTR

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SCN2Ligand/IonTHIOCYANATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:104BINDING SITE FOR RESIDUE SCN A1304
2AC2SOFTWARETHR B:104BINDING SITE FOR RESIDUE SCN B1301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5AE4)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Ser A:184 -Pro A:185
2Gly B:136 -Asn B:137
3Ser B:184 -Pro B:185

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AE4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AE4)

(-) Exons   (0, 0)

(no "Exon" information available for 5AE4)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee.hhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhh....eeee........eeeeeeeee.eeeeee..........hhhhhhhheeeee........hhhhhhhhh....eeeeee....hhhhhhhhh..eeeeehhhhhhhhhhhheeeee.......eeeeeeee.hhh.hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ae4 A  89 SFDPFASTRTFNLAMTDIGEMYFMPPLMEALAQRAPHIQISTLRPNAGNLKEDMESGAVDLALGLLPELQTGFFQRRLFRTRYVCMFRKDHPSAKSPMSLKQFSELEHVGVVALNTGHGEVDGLLERAGIKRRMRLVVPHFIAIGPILHSTDLIATVPQRFAVRCEVPFGLTTSPHPAKLPDIAINLFWHAKYNRDPGNMWLRQLFVELFSEARH 303
                                    98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298     

Chain B from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeeehhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhh....eeee........eeeeeeeee.eeeeee..........hhhhhhhheeeee....hhhhhhhhhhhhh....eeeeee....hhhhhhhhh..eeeeehhhhhhhhh...eeeee.......eeeeeeee.hhh.hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ae4 B  88 DSFDPFASTRTFNLAMTDIGEMYFMPPLMEALAQRAPHIQISTLRPNAGNLKEDMESGAVDLALGLLPELQTGFFQRRLFRTRYVCMFRKDHPSAKSPMSLKQFSELEHVGVVALNTGHGEVDGLLERAGIKRRMRLVVPHFIAIGPILHSTDLIATVPQRFAVRCEVPFGLTTSPHPAKLPDIAINLFWHAKYNRDPGNMWLRQLFVELFSE 300
                                    97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297   

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  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5AE4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AE4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AE4)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q7WT50_9BURK | Q7WT501utb 1uth 2y7k 2y7p 2y7r 2y7w 2y84 5ae5

(-) Related Entries Specified in the PDB File

5ae5 STRUCTURES OF INACTIVE AND ACTIVATED DNTR PROVIDE CONCLUSIVE EVIDENCE FOR THE MECHANISM OF ACTION OF LYSR TRANSCRIPTION FACTORS