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(-) Description

Title :  CRYSTAL STRUCTURE OF THE '627' DOMAIN OF THE PB2 SUBUNIT OF THOGOTO VIRUS POLYMERASE
 
Authors :  D. Guilligay, J. Kadlec, T. Crepin, T. Lunardi, D. Bouvier, G. Kochs, R. W. H. Ruigrok, S. Cusack
Date :  01 Dec 13  (Deposition) - 05 Feb 14  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Guilligay, J. Kadlec, T. Crepin, T. Lunardi, D. Bouvier, G. Kochs, R. W. H. Ruigrok, S. Cusack
Comparative Structural And Functional Analysis Of Orthomyxovirus Polymerase Cap-Snatching Domains.
Plos One V. 9 84973 2014
PubMed-ID: 24454773  |  Reference-DOI: 10.1371/JOURNAL.PONE.0084973

(-) Compounds

Molecule 1 - POLYMERASE ACIDIC PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: CODON PLUS-RIL
    Expression System Vector: PET-M11
    Expression System Vector Type: PLASMID
    Fragment: CENTRAL '627' DOMAIN, RESIDUES 543-701
    Organism Scientific: THOGOTO VIRUS
    Organism Taxid: 11569
    Synonym: RNA-DIRECTED RNA POLYMERASE SUBUNIT P3

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4CHD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 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/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:135
 aligned with PB2_THOGV | Q9YNA4 from UniProtKB/Swiss-Prot  Length:769

    Alignment length:135
                                   556       566       576       586       596       606       616       626       636       646       656       666       676     
            PB2_THOGV   547 DPFSRAKSLLKSTILHAERCKEFVGNMLEEYQDPAETTVQSLVPINTWGKSAKRKLQEEITSDPDWHQCPRKRAKMSYLAIIAGSIQDRDKKQTNVPRAFMLRGSQIEYDMKATRGLVVDTTNRIIVGGETVLRE 681
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh..............eee......eee.......eeee..eeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4chd A 547 DPFSRAKSLLKSTILHAERCKEFVGNMLEEYQDPAETTVQSLVPINTWGKSAKRKLQEEITSDPDWHQCPRKRAKMSYLAIIAGSIQDRDKKQTNVPRAFMLRGSQIEYDMKATRGLVVDTTNRIIVGGETVLRE 681
                                   556       566       576       586       596       606       616       626       636       646       656       666       676
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PB2_THOGV | Q9YNA4)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003968    RNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time.
biological process
    GO:0006370    7-methylguanosine mRNA capping    Addition of the 7-methylguanosine cap to the 5' end of a nascent messenger RNA transcript.
    GO:0075526    cap snatching    A transcription initiation process during which a nucleotide sequence between 10 and 20 nucleotides in size is cleaved from the 5' end of host mRNAs by a viral RNA-dependent polymerase. The capped leader sequence obtained is subsequently used to prime transcription on the viral genome, which ultimately leads to the synthesis of capped, translatable viral mRNAs.
    GO:0006397    mRNA processing    Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PB2_THOGV | Q9YNA4: 4che 4chf

(-) Related Entries Specified in the PDB File

4cgs CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF THE PA SUBUNIT OF DHORI VIRUS POLYMERASE
4cgx CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF THE PA SUBUNIT OF THOGOTO VIRUS POLYMERASE (FORM 1)
4chc CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF THE PA SUBUNIT OF THOGOTO VIRUS POLYMERASE (FORM 2)
4che CRYSTAL STRUCTURE OF THE PUTATIVE CAP-BINDING DOMAIN OF THE PB2 SUBUNIT OF THOGOTO VIRUS POLYMERASE
4chf CRYSTAL STRUCTURE OF THE PUTATIVE CAP-BINDING DOMAIN OF THE PB2 SUBUNIT OF THOGOTO VIRUS POLYMERASE (FORM 2)