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PDBsum entry 3ol7

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protein dna_rna ligands metals Protein-protein interface(s) links
Transferase/RNA PDB id
3ol7
Jmol
Contents
Protein chains
461 a.a. *
DNA/RNA
Ligands
POP ×4
IPA ×15
PEG ×4
GOL ×8
Metals
_ZN ×4
_MG ×6
Waters ×549
* Residue conservation analysis
PDB id:
3ol7
Name: Transferase/RNA
Title: Poliovirus polymerase elongation complex with ctp
Structure: Polymerase. Chain: a, e, i, m. Fragment: unp residues 1749-2209. Engineered: yes. Mutation: yes. RNA (5'- r( Ap Ap Gp Up Cp Up Cp Cp Ap Gp Gp Up Cp Up Cp Up Cp Gp Up gp Ap Ap A)-3'). Chain: b, f, j, n.
Source: Human poliovirus 1. Organism_taxid: 12080. Strain: mahoney. Gene: 3d. Expressed in: escherichia coli. Expression_system_taxid: 469008. Synthetic: yes. Other_details: RNA prepared by t7 RNA polymerase transcript followed by glms ribozyme self-cleavage.
Resolution:
2.70Å     R-factor:   0.229     R-free:   0.290
Authors: P.Gong,O.B.Peersen
Key ref: P.Gong and O.B.Peersen (2010). Structural basis for active site closure by the poliovirus RNA-dependent RNA polymerase. Proc Natl Acad Sci U S A, 107, 22505-22510. PubMed id: 21148772
Date:
25-Aug-10     Release date:   22-Dec-10    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
P03300  (POLG_POL1M) -  Genome polyprotein
Seq:
Struc:
 
Seq:
Struc:
 
Seq:
Struc:
 
Seq:
Struc:
 
Seq:
Struc:
2209 a.a.
461 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class 2: E.C.2.7.7.48  - RNA-directed Rna polymerase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Nucleoside triphosphate
Bound ligand (Het Group name = POP)
matches with 40.00% similarity
+ RNA(n)
= diphosphate
+ RNA(n+1)
   Enzyme class 3: E.C.3.4.22.28  - Picornain 3C.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
   Enzyme class 4: E.C.3.4.22.29  - Picornain 2A.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Selective cleavage of Tyr-|-Gly bond in the picornavirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
   Enzyme class 5: E.C.3.6.1.15  - Nucleoside-triphosphate phosphatase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: NTP + H2O = NDP + phosphate
NTP
+ H(2)O
= NDP
+ phosphate
Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.
Molecule diagrams generated from .mol files obtained from the KEGG ftp site
 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     transcription, DNA-dependent   2 terms 
  Biochemical function     RNA binding     2 terms  

 

 
    reference    
 
 
Proc Natl Acad Sci U S A 107:22505-22510 (2010)
PubMed id: 21148772  
 
 
Structural basis for active site closure by the poliovirus RNA-dependent RNA polymerase.
P.Gong, O.B.Peersen.
 
  ABSTRACT  
 
No abstract given.