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(-) Description

Title :  STRUCTURE OF THE STAPHYLOCOCCUS AUREUS AGRA LYTTR DOMAIN
 
Authors :  P. G. Leonard, I. F. Bezar, A. M. Stock
Date :  16 Jul 12  (Deposition) - 19 Dec 12  (Release) - 02 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.52
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Agra, Response Regulator, Activator, Transcription Factor, Phosphoprotein, Transcription Regulation, Two-Component System, Lyttr Domain, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. G. Leonard, I. F. Bezar, D. J. Sidote, A. M. Stock
Identification Of A Hydrophobic Cleft In The Lyttr Domain O Agra As A Locus For Small Molecule Interactions That Inhibi Dna Binding.
Biochemistry V. 51 10035 2012
PubMed-ID: 23181972  |  Reference-DOI: 10.1021/BI3011785

(-) Compounds

Molecule 1 - ACCESSORY GENE REGULATOR PROTEIN A
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET9A
    Expression System Strain: BL21-GOLD(DE3)PLYSS AG
    Expression System Taxid: 866768
    Expression System Vector Type: PLASMID
    Fragment: AGRA LYTTR DOMAIN
    Gene: AGR, AGRA
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:200 , ARG A:218 , HOH A:402 , HOH A:483 , HOH A:550 , ASN B:177 , ARG B:178BINDING SITE FOR RESIDUE GOL A 301
2AC2SOFTWAREARG A:178 , HIS B:200 , HOH B:448BINDING SITE FOR RESIDUE GOL A 302
3AC3SOFTWAREARG A:207 , LYS A:225 , ILE A:238 , HOH A:452 , GLU B:144 , LYS B:146 , TYR B:153 , HOH B:406 , HOH B:410BINDING SITE FOR RESIDUE GOL B 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4G4K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4G4K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:98
                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....eeeee...eeeee.......eeeee...eeee..hhhhhhh....eeeee..eeee...eeeee....eeee....eee....hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                 4g4k A 141 ETIELKRGSNSVYVQYDDIMFFESSTKSHRLIAHLDNRQIEFYGNLKELSQLDDRFFRCHNSFVVNRHNIESIDSKERIVYFKNKEHCYASVRNVKKI 238
                                   150       160       170       180       190       200       210       220       230        


Chain B from PDB  Type:PROTEIN  Length:100
                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee......eeee...eeeeee......eeeee...eeee..hhhhhhh....eeeee..eeee...eeeee....eeee....eee....hhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 4g4k B 139 SVETIELKRGSNSVYVQYDDIMFFESSTKSHRLIAHLDNRQIEFYGNLKELSQLDDRFFRCHNSFVVNRHNIESIDSKERIVYFKNKEHCYASVRNVKKI 238
                                   148       158       168       178       188       198       208       218       228       238
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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  (0, 0)

(no "SCOP Domain" information available for 4G4K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G4K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G4K)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        AGRA_STAAU | P0A0I7: 3bs1

(-) Related Entries Specified in the PDB File

3bs1 AGRA LYTTR DOMAIN BOUND TO DNA DUPLEX