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(-)Asym./Biol. Unit
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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DIMERIZATION DOMAIN OF LSR2 FROM MYCOBACTERIUM TUBERCULOSIS IN THE P 31 2 1 SPACE GROUP
 
Authors :  E. L. Summers, K. Meindl, I. Uson, V. L. Arcus
Date :  06 Mar 12  (Deposition) - 20 Jun 12  (Release) - 23 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.04
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Anti-Parallel Beta Sheet, Dimer, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. L. Summers, K. Meindl, I. Uson, A. K. Mitra, M. Radjainia, R. Colangeli, D. Alland, V. L. Arcus
The Structure Of The Oligomerization Domain Of Lsr2 From Mycobacterium Tuberculosis Reveals A Mechanism For Chromosome Organization And Protection.
Plos One V. 7 38542 2012
PubMed-ID: 22719899  |  Reference-DOI: 10.1371/JOURNAL.PONE.0038542

(-) Compounds

Molecule 1 - PROTEIN LSR2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEXHTB
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: DIMERIZATION DOMAIN (UNP RESIDUES 1-61)
    Gene: LSR2, MT3704, MTCY07H7B.25, RV3597C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Strain: H37RA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4E1R)

(-) Sites  (0, 0)

(no "Site" information available for 4E1R)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4E1R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4E1R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E1R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E1R)

(-) Exons   (0, 0)

(no "Exon" information available for 4E1R)

(-) 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:55
 aligned with LSR2_MYCTO | P9WIP6 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:55
                                    13        23        33        43        53     
            LSR2_MYCTO    4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRV 58
               SCOP domains ------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                  4e1r A  4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRV 58
                                    13        23        33        43        53     


Chain A from PDB  Type:PROTEIN  Length:55
 aligned with LSR2_MYCTU | P9WIP7 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:55
                                    13        23        33        43        53     
            LSR2_MYCTU    4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRV 58
               SCOP domains ------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                  4e1r A  4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRV 58
                                    13        23        33        43        53     


Chain B from PDB  Type:PROTEIN  Length:56
 aligned with LSR2_MYCTO | P9WIP6 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:56
                                    13        23        33        43        53      
            LSR2_MYCTO    4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRVG 59
               SCOP domains -------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhheee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                  4e1r B  4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRVG 59
                                    13        23        33        43        53      


Chain B from PDB  Type:PROTEIN  Length:56
 aligned with LSR2_MYCTU | P9WIP7 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:56
                                    13        23        33        43        53      
            LSR2_MYCTU    4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRVG 59
               SCOP domains -------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhheee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                  4e1r B  4 KVTVTLVDDFDGSGAADETVEFGLDGVTYEIDLSTKNATKLRGDLKQWVAAGRRVG 59
                                    13        23        33        43        53
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4E1R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E1R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E1R)

(-) Gene Ontology  (13, 19)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (LSR2_MYCTO | P9WIP6)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0009295    nucleoid    The region of a virus, bacterial cell, mitochondrion or chloroplast to which the nucleic acid is confined.

Chain A,B   (LSR2_MYCTU | P9WIP7)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0042262    DNA protection    Any process in which DNA is protected from damage by, for example, oxidative stress.
    GO:0040007    growth    The increase in size or mass of an entire organism, a part of an organism or a cell.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0042542    response to hydrogen peroxide    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydrogen peroxide (H2O2) stimulus.
    GO:0010039    response to iron ion    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an iron ion stimulus.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0009295    nucleoid    The region of a virus, bacterial cell, mitochondrion or chloroplast to which the nucleic acid is confined.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LSR2_MYCTO | P9WIP6: 2kng 4e1p
        LSR2_MYCTU | P9WIP7: 2kng 4e1p

(-) Related Entries Specified in the PDB File

4e1p