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(-) Description

Title :  CRYSTAL STRUCTURE OF THE METAL-SENSING TRANSCRIPTIONAL REPRESSOR CZRA FROM STAPHYLOCOCCUS AUREUS IN THE ZN2-FORM
 
Authors :  C. Eicken, M. A. Pennella, X. Chen, K. M. Koshlap, M. L. Vanzile, J. C. Sac D. P. Giedroc
Date :  25 Sep 03  (Deposition) - 18 May 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Biol. Unit 3:  A,B  (2x)
Keywords :  Dna Binding, Transcriptional Regulation, Winged Hth Protein, Transcription Repressor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Eicken, M. A. Pennella, X. Chen, K. M. Koshlap, M. L. Vanzile, J. C. Sacchettini, D. P. Giedroc
A Metal-Ligand-Mediated Intersubunit Allosteric Switch In Related Smtb/Arsr Zinc Sensor Proteins.
J. Mol. Biol. V. 333 683 2003
PubMed-ID: 14568530  |  Reference-DOI: 10.1016/J.JMB.2003.09.007

(-) Compounds

Molecule 1 - REPRESSOR PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: CZRA
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synonym: CZRA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B
Biological Unit 3 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1ZN4Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:84 , HIS A:86 , HIS A:97 , HIS A:100BINDING SITE FOR RESIDUE ZN A 501
2AC2SOFTWAREHIS A:86 , HIS A:96 , HOH A:1050 , HIS B:86 , HIS B:96BINDING SITE FOR RESIDUE ZN A 502
3AC3SOFTWAREASP B:84 , HIS B:86 , HIS B:97 , HIS B:100BINDING SITE FOR RESIDUE ZN A 503
4AC4SOFTWARELEU A:51 , SER A:52 , ASN A:55 , LEU B:51 , SER B:52 , ASN B:55BINDING SITE FOR RESIDUE ZN A 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1R1V)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1R1V)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1R1V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1R1V)

(-) Exons   (0, 0)

(no "Exon" information available for 1R1V)

(-) Sequences/Alignments

Asymmetric 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:95
 aligned with O85142_STAAU | O85142 from UniProtKB/TrEMBL  Length:106

    Alignment length:95
                                    18        28        38        48        58        68        78        88        98     
         O85142_STAAU     9 NTDTLERVTEIFKALGDYNRIRIMELLSVSEASVGHISHQLNLSQSNVSHQLKLLKSVHLVKAKRQGQSMIYSLDDIHVATMLKQAIHHANHPKE 103
               SCOP domains d1r1va_ A: Metal-sensing transcriptional repressor CzrA                                         SCOP domains
               CATH domains 1r1vA00 A:9-103 'winged helix' repressor DNA binding domain                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhh..eeeeee..eeeeee.hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 1r1v A   9 NTDTLERVTEIFKALGDYNRIRIMELLSVSEASVGHISHQLNLSQSNVSHQLKLLKSVHLVKAKRQGQSMIYSLDDIHVATMLKQAIHHANHPKE 103
                                    18        28        38        48        58        68        78        88        98     


Chain B from PDB  Type:PROTEIN  Length:96
 aligned with O85142_STAAU | O85142 from UniProtKB/TrEMBL  Length:106

    Alignment length:96
                                    18        28        38        48        58        68        78        88        98      
         O85142_STAAU     9 NTDTLERVTEIFKALGDYNRIRIMELLSVSEASVGHISHQLNLSQSNVSHQLKLLKSVHLVKAKRQGQSMIYSLDDIHVATMLKQAIHHANHPKES 104
               SCOP domains d1r1vb_ B: Metal-sensing transcriptional repressor CzrA                                          SCOP domains
               CATH domains 1r1vB00 B:9-104 'winged helix' repressor DNA binding domain                                      CATH domains
           Pfam domains (1) --------HTH_20-1r1vB01 B:17-76                                      ---------------------------- Pfam domains (1)
           Pfam domains (2) --------HTH_20-1r1vB02 B:17-76                                      ---------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhh..eeee......eeee.hhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------ Transcript
                 1r1v B   9 NTDTLERVTEIFKALGDYNRIRIMELLSVSEASVGHISHQLNLSQSNVSHQLKLLKSVHLVKAKRQGQSMIYSLDDIHVATMLKQAIHHANHPKES 104
                                    18        28        38        48        58        68        78        88        98
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (O85142_STAAU | O85142)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

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

UniProtKB/TrEMBL
        O85142_STAAU | O85142: 1r1u 2kjb 2kjc 2m30

(-) Related Entries Specified in the PDB File

1r1t SMTB APO-FORM
1r1u THE SAME PROTEIN IN THE APO-FORM
1r22 SMTB (C14S/C61S/C121S MUTANT) IN ITS ZN2-FORM
1r23 SMTB IN THE ZN1-FORM
1smt SMTB APO-FORM