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(-) Description

Title :  STRUCTURAL BASIS FOR PEROXIDE SENSING AND GENE REGULATION BY PERR FROM STREPTOCOCCUS PYOGENES
 
Authors :  M. Kumaraswami
Date :  30 Nov 12  (Deposition) - 08 May 13  (Release) - 10 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Winged Helix-Turn-Helix Motif, Oxidative Stress Sensing, Metal Homeostasis, Dna, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Makthal, S. Rastegari, M. Sanson, Z. Ma, R. J. Olsen, J. D. Helmann, J. M. Musser, M. Kumaraswami
Crystal Structure Of Peroxide Stress Regulator From Streptococcus Pyogenes Provides Functional Insights Into Th Mechanism Of Oxidative Stress Sensing.
J. Biol. Chem. V. 288 18311 2013
PubMed-ID: 23645680  |  Reference-DOI: 10.1074/JBC.M113.456590

(-) Compounds

Molecule 1 - PEROXIDE STRESS SENSING REGULATOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SPF, SPYM3_0147
    Organism Scientific: STREPTOCOCCUS PYOGENES
    Organism Taxid: 198466
    Strain: ATCC BAA-595 / MGAS315
    Synonym: PERR

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1NI2Ligand/IonNICKEL (II) ION
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:4 , HIS A:6 , ASN A:15 , HIS A:19 , HIS A:97 , HIS A:99BINDING SITE FOR RESIDUE NI A 201
2AC2SOFTWARECYS A:104 , CYS A:107 , CYS A:144 , CYS A:147BINDING SITE FOR RESIDUE ZN A 202
3AC3SOFTWARECYS B:104 , CYS B:107 , CYS B:144 , CYS B:147BINDING SITE FOR RESIDUE ZN B 201
4AC4SOFTWAREHIS B:4 , HIS B:6 , ASN B:15 , HIS B:19 , HIS B:97 , HIS B:99BINDING SITE FOR RESIDUE NI B 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I7H)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I7H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I7H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I7H)

(-) Exons   (0, 0)

(no "Exon" information available for 4I7H)

(-) 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:147
                                                                                                                                                                                   
               SCOP domains d4i7ha_ A: automated matches                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhh....hhhhhhhhhhhhhh....hhhhhhhhhhhhh...hhhhhhhhhhhhhhh..eeee........eeee...eeeeeee.....eeeeee.hhhhhhhhhhhhhh.eeee....eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i7h A   2 DIHSHQQALDAYENVLEHLREKHIRITETRKAIISYMIQSTEHPSADKIYRDLQPNFPNMSLATVYNNLKVLVDEGFVSELKISNDLTTYYDFMGHQHVNVVCEICGKIADFMDVDVMDIAKEAHEQTGYKVTRIPVIAYGICPDCQ 148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       


Chain B from PDB  Type:PROTEIN  Length:148
                                                                                                                                                                                    
               SCOP domains d4i7hb_ B: automated matches                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhhhhhh...hhhhhhhhhhhhhhh..eeee........eeee...eeeeeee.....eeeeee.hhhhhhhhhhhhhh.eeee....eeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i7h B   2 DIHSHQQALDAYENVLEHLREKHIRITETRKAIISYMIQSTEHPSADKIYRDLQPNFPNMSLATVYNNLKVLVDEGFVSELKISNDLTTYYDFMGHQHVNVVCEICGKIADFMDVDVMDIAKEAHEQTGYKVTRIPVIAYGICPDCQA 149
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141
   Legend:   → Mismatch (orange background)
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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  (1, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I7H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I7H)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4I7H)

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  Cis Peptide Bonds
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