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(-) Description

Authors :  A. E. Hodel, P. D. Gershon, F. A. Quiocho
Date :  26 Sep 97  (Deposition) - 25 Feb 98  (Release) - 12 Jan 11  (Revision)
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Single-Stranded Rna, Methyltransferase, Rna Cap, Poly(A) Polymerase, Vaccinia, Mrna Processing, Transcription, Complex (Transferase-Rna), Transferase-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  A. E. Hodel, P. D. Gershon, F. A. Quiocho
Structural Basis For Sequence-Nonspecific Recognition Of 5'-Capped Mrna By A Cap-Modifying Enzyme.
Mol. Cell V. 1 443 1998
PubMed-ID: 9660928  |  Reference-DOI: 10.1016/S1097-2765(00)80044-1

(-) Compounds

Molecule 1 - RNA (5'-R(*GP*AP*AP*AP*AP*A)-3')
    EC Number2.1.1.57
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21 (DE3)
    Expression System Taxid469008
    GenePAPS, VACWR095, F9
    Organism CommonVACV
    Organism ScientificVACCINIA VIRUS WR
    Organism Taxid10254

 Structural Features

(-) Chains, Units

Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
1AC1SOFTWARETYR A:22 , ALA A:27 , PRO A:148 , ARG A:177 , PHE A:180 , ASP A:182 , TYR A:204 , SER A:205 , GLU A:207 , GLU A:233 , G B:402BINDING SITE FOR RESIDUE MGT B 408
2AC2SOFTWAREGLN A:39 , LEU A:42 , TYR A:66 , ILE A:67 , GLY A:68 , ALA A:70 , PRO A:71 , GLY A:72 , HIS A:74 , ASP A:95 , PHE A:115 , VAL A:116 , ASP A:138 , VAL A:139 , LEU A:159 , G B:402BINDING SITE FOR RESIDUE SAH A 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1AV6)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
1Ala A:70 -Pro A:71
2His A:129 -Pro A:130

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1AV6)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
1SAM_MT_2O_PKPS51612 Poxvirus/kinetoplastid-type ribose 2'-O-methyltransferase (EC family profile.MCE_VACCW4-262  1A:4-262

(-) Exons   (0, 0)

(no "Exon" information available for 1AV6)

(-) 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:289
 aligned with MCE_VACCW | P07617 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:295
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292     
               SCOP domains d1av6a_ A: Polymerase regulatory subunit VP39                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1av6A00 A:3-297 Vaccinia Virus protein VP39                                                                                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh........hhhhh........hhhhhhhhhhhhhhhhhhhh.....eeeeee.....hhhhhhhhhhhhh...eeeeeee.....hhh.....eeeee....hhhhhhhhhhh....eeeee....------..hhhhhhhhhhhhhhhhhh...eeeeee...........eeee..eee...........eeeeee.......eeee.hhhhhhhhhhhhhhhh.hhh............hhhhhhhhhhhh.........hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -SAM_MT_2O_PK  PDB: A:4-262 UniProt: 4-262                                                                                                                                                                                                                          ----------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                                    12        22        32        42        52        62        72        82        92       102       112       122       132        |-     | 152       162       172       182       192       202       212       222       232       242       252       262       272       282       292     
                                                                                                                                                                    141    148                                                                                                                                                     

Chain B from PDB  Type:RNA  Length:6
                 1av6 B 402 GAAAAA 407

   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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1AV6)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MCE_VACCW | P07617)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0004483    mRNA (nucleoside-2'-O-)-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + m7G(5')pppR-RNA = S-adenosyl-L-homocysteine + m7G(5')pppRm-RNA. R may be guanosine or adenosine.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0003746    translation elongation factor activity    Functions in chain elongation during polypeptide synthesis at the ribosome.
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:0080009    mRNA methylation    The posttranscriptional addition of methyl groups to specific residues in an mRNA molecule.
    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:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    GO:0031440    regulation of mRNA 3'-end processing    Any process that modulates the frequency, rate or extent of mRNA 3'-end processing, any process involved in forming the mature 3' end of an mRNA molecule.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
    GO:0006414    translational elongation    The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis.
cellular component
    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)

        MCE_VACCW | P076171b42 1bky 1eam 1eqa 1jsz 1jte 1jtf 1p39 1v39 1vp3 1vp9 1vpt 2ga9 2gaf 2vp3 3er8 3er9 3erc 3mag 3mct 4dcg

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1AV6)