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(-) Description

Title :  MAJOR COLD-SHOCK PROTEIN FROM ESCHERICHIA COLI SOLUTION NMR STRUCTURE
 
Authors :  W. Feng, R. Tejero, G. T. Montelione
Date :  09 Oct 98  (Deposition) - 14 Oct 98  (Release) - 13 Jul 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (16x)
NMR Structure *:  A  (1x)
Keywords :  Cold-Shock Protein, Transcription Regulation, Single-Stranded Rna/Dna Binding, Ob Fold, Greek-Key Topology, Rna Chaperone, Aromatic-Base Stacking Interactions, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Feng, R. Tejero, D. E. Zimmerman, M. Inouye, G. T. Montelione
Solution Nmr Structure And Backbone Dynamics Of The Major Cold-Shock Protein (Cspa) From Escherichia Coli: Evidence For Conformational Dynamics In The Single-Stranded Rna-Binding Site.
Biochemistry V. 37 10881 1998
PubMed-ID: 9692981  |  Reference-DOI: 10.1021/BI980269J
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (COLD-SHOCK PROTEIN A)
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Gene: U60035
    Expression System Plasmid: PET11-CSPA
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: FULL LENGTH PROTEIN
    Gene: U60035
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 469008
    Other Details: PCR-GENERATED GENE
    Strain: BL21(DE3)
    Synonym: CSPA, CS7.4

 Structural Features

(-) Chains, Units

  1
NMR Structure (16x): A
NMR Structure * (1x): A

Summary Information (see also Sequences/Alignments below)

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

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(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MEF)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COLD_SHOCKPS00352 'Cold-shock' domain signature.CSPA_ECOLI18-37  1A:18-37
NMR Structure * (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1COLD_SHOCKPS00352 'Cold-shock' domain signature.CSPA_ECOLI18-37  1A:18-37

(-) Exons   (0, 0)

(no "Exon" information available for 3MEF)

(-) Sequences/Alignments

NMR Structure
   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:69
 aligned with CSPA_ECOLI | P0A9X9 from UniProtKB/Swiss-Prot  Length:70

    Alignment length:69
                                    11        21        31        41        51        61         
            CSPA_ECOLI    2 SGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKGPAAGNVTSL 70
               SCOP domains d3mefa_ A: Major cold shock protein                                   SCOP domains
               CATH domains 3mefA00 A:2-70 Nucleic acid-binding proteins                          CATH domains
               Pfam domains ---CSD-3mefA01 A:5-70                                                 Pfam domains
         Sec.struct. author ...eeeeeeeee....eeeee.......eeee................eeeeeee......eeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------COLD_SHOCK          --------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                  3mef A  2 SGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKGPAAGNVTSL 70
                                    11        21        31        41        51        61
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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, 1)

NMR Structure
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: OB (224)

(-) Gene Ontology  (14, 14)

NMR Structure(hide GO term definitions)
Chain A   (CSPA_ECOLI | P0A9X9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.
    GO:0003727    single-stranded RNA binding    Interacting selectively and non-covalently with single-stranded RNA.
    GO:0001072    transcription antitermination factor activity, RNA binding    Binds to RNA, typically within the nascent RNA transcript, to promote readthrough of a transcription termination site and thus extending the length of the RNA transcript produced. Examples of antitermination factors which bind the nascent RNA include the lambda N protein and the HIV-1 tat protein.
biological process
    GO:0060567    negative regulation of DNA-templated transcription, termination    Any process that decreases the rate, frequency or extent of DNA-dependent transcription termination, the process in which transcription is completed; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0009409    response to cold    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 cold stimulus, a temperature stimulus below the optimal temperature for that organism.
    GO:0031564    transcription antitermination    Regulation of transcription by a mechanism that allows RNA polymerase to continue transcription beyond termination site(s).
    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:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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UniProtKB/Swiss-Prot
        CSPA_ECOLI | P0A9X9: 1mjc 2bh8 2l15

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