Structure of PDB 3o3g Chain A Binding Site BS04

Receptor Information

>3o3g Chain A (length=222) Species: 2336 (Thermotoga maritima)

GIDELYKKEFGIVAGVDEAGRGCLAGPVVAAAVVLEKEIEGINDSKQLSP
AKRERLLDEIMEKAAVGIGIASPEEIDLYNIFNATKLAMNRALENLSVKP
SFVLVDGKGIELSVPGTCLVKGDQKSKLIGAASIVAKVFRDRLMSEFHRM
YPQFSFHKHKGYATKEHLNEIRKNGVLPIHRLSFEPVLELLTDDLLREFF
EKGLISENRFERILNLLGARKS

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: 3o3g Chain A Residue 224

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3o3g Crystal Structures of RNase H2 in Complex with Nucleic Acid Reveal the Mechanism of RNA-DNA Junction Recognition and Cleavage.
• Resolution: 2.1 Å
• Binding residue (original residue number in PDB): D18 E19 D107
• Binding residue (residue number reindexed from 1): D17 E18 D106
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.1.26.4: ribonuclease H.

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0004519 endonuclease activity
• GO:0004523 RNA-DNA hybrid ribonuclease activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006298 mismatch repair
• GO:0006401 RNA catabolic process
• GO:0043137 DNA replication, removal of RNA primer

Cellular Component

• GO:0005737 cytoplasm
• GO:0032299 ribonuclease H2 complex

External links

• PDB: RCSB:3o3g, PDBe:3o3g, PDBj:3o3g
• PDBsum: 3o3g
• PubMed: 21095591
• UniProt: Q9X017|RNH2_THEMA Ribonuclease HII (Gene Name=rnhB)