Structure of PDB 1rdr Chain A Binding Site BS01

Receptor Information

>1rdr Chain A (length=316) Species: 12081 (Human poliovirus 1 Mahoney)

VGYPIINAPSKTKLEPSAFHYVFEGVITEVDEYMKEAVDHYAGQLMSLDI
NTEQMCLNDSVAMRMAFGNLYAAFHKNPGVITGSAVGCDPDLFWSKIPVL
MEEKLFAFDYTGYDASLSPAWFEALKMVLEKIGFGDRVDYIDYLNSGTSI
FNSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEVDASLLAQ
SGKDYGLTMTPADKSATFETVTWENVTFLKRFFRADEKYPFLIHPVMPMK
EIHESIRWTKDPRNTQDHVRSLCLLAWHNGEEEYNKFLAKIRSVPIGRAL
LLPEYSTLYRRWLDSF

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 1rdr Chain A Residue 501

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1rdr Structure of the RNA-dependent RNA polymerase of poliovirus.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): D233 D329
• Binding residue (residue number reindexed from 1): D109 D184
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.
  3.4.22.28: picornain 3C.
  3.4.22.29: picornain 2A.
  3.6.1.15: nucleoside-triphosphate phosphatase.

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity

Biological Process

• GO:0006351 DNA-templated transcription
• GO:0039694 viral RNA genome replication

External links

• PDB: RCSB:1rdr, PDBe:1rdr, PDBj:1rdr
• PDBsum: 1rdr
• PubMed: 9309225
• UniProt: P03300|POLG_POL1M Genome polyprotein