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(-) Description

Title :  STRUCTURE OF AGRA LYTTR DOMAIN IN COMPLEX WITH PROMOTERS
 
Authors :  B. Gopal, K. Rajasree
Date :  30 Jan 15  (Deposition) - 06 Apr 16  (Release) - 06 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Protein-Dna Complex, Transcription-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Gopal, K. Rajasree
Conformational Features Of The Staphylococcus Aureus Agra-Promoter Interactions Rationalize Quorum-Sensing Triggered Gene Expression
Biochem Biophys Rep 2016
PubMed: search  |  Reference-DOI: 10.1016/J.BBREP.2016.03.012

(-) Compounds

Molecule 1 - ACCESSORY GENE REGULATOR A
    Chains: A, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: ROSETTAPLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 140-238
    Gene: AGRA, SACOL2026
    Organism Scientific: STAPHYLOCOCCUS AUREUS (STRAIN COL)
    Organism Taxid: 93062
    Strain: COL
 
Molecule 2 - DNA (5'-D(P*TP*AP*CP*AP*GP*TP*TP*AP*GP*GP*CP*AP*A)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(*AP*TP*TP*GP*CP*CP*TP*AP*AP*CP*TP*GP*TP*AP*G)- 3')
    Chains: C, F
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 4 - DNA (5'-D(P*TP*AP*CP*AP*GP*TP*TP*AP*GP*GP*CP*AP*T)-3')
    Chains: E
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4XXE)

(-) Sites  (0, 0)

(no "Site" information available for 4XXE)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XXE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XXE)

(-) Exons   (0, 0)

(no "Exon" information available for 4XXE)

(-) 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    
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Chain A from PDB  Type:PROTEIN  Length:99
                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eeeee...eeeeee.....eeeeee...eeeee.hhhhhhh....eeeee..eeee...eeeee....eeee....eee.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                 4xxe A 140 VETIELKRGSNSVYVQYDDIMFFESSTKSHRLIAHLDNRQIEFYGNLKELSQLDDRFFRCHNSFVVNRHNIESIDSKERIVYFKNKEHCYASVRNVKKI 238
                                   149       159       169       179       189       199       209       219       229         


Chain B from PDB  Type:DNA  Length:13
                                             
                 4xxe B   4 TACAGTTAGGCAA  16
                                    13   


Chain C from PDB  Type:DNA  Length:15
                                               
                 4xxe C   1 ATTGCCTAACTGTAG  15
                                    10     


Chain D from PDB  Type:PROTEIN  Length:99
                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eeeee...eeeeee.....eeeeee...eeeee.hhhhhhh....eeeee..eeee...eeeee....eeee....eee.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                 4xxe D 140 VETIELKRGSNSVYVQYDDIMFFESSTKSHRLIAHLDNRQIEFYGNLKELSQLDDRFFRCHNSFVVNRHNIESIDSKERIVYFKNKEHCYASVRNVKKI 238
                                   149       159       169       179       189       199       209       219       229         


Chain E from PDB  Type:DNA  Length:13
                                             
                 4xxe E   4 TACAGTTAGGCAT  16
                                    13   


Chain F from PDB  Type:DNA  Length:15
                                               
                 4xxe F   1 ATTGCCTAACTGTAG  15
                                    10
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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 4XXE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  4xxe
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 Related Entries

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

UniProtKB/Swiss-Prot
        AGRA_STAAC | Q5HEG2: 4xqj 4xqn 4xqq 4xyo 4xyq

(-) Related Entries Specified in the PDB File

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