Structure of PDB 3pov Chain A Binding Site BS04

Receptor Information

>3pov Chain A (length=445) Species: 435895 (Human herpesvirus 8 type M)

TPTPADLFSEDYLVDTLDGLTVDDQQAVLASLSFSKFLKHAKVRDWCAQA
KIQPSMPALRMAYNYFLFSKVGEFIGSEDVCNFFVDRVFGGVRLLDVASV
YAACSQMNAHQRHHICCLVERATSSQSLNPVWDALRDGIISSSKFHWAVK
QQKIFSPAFGLRCEEVVKTLLATLLHPDETNCLDYGFMQSPQNGIFGVSL
DFAANVKTFDPNCKVYEIKCRFKYTFAKMECDPIYAAYQRLYEAPGKLAL
KDFFYSISKPAVEYVGLGKLPSESDYLVAYDQEWEACPRKKRKLTPLHNL
IRECILHNSTTESDVYVLTDPQDTRGQISIKARFKANLFVNVRHSYFYQV
LLQSSIVEEYIGSPKYYIATGFFRKRGYQDPVNCTIGGDALDPHVEIPTL
LIVTPVYFPRGAKHRLLHQAANFWSRSAKDTFPYIKWDFSYLSAN

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 3pov Chain A Residue 488

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3pov Crystal structure of a KSHV-SOX-DNA complex: insights into the molecular mechanisms underlying DNase activity and host shutoff
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): K246 C247
• Binding residue (residue number reindexed from 1): K219 C220
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0004519 endonuclease activity
• GO:0004527 exonuclease activity
• GO:0005515 protein binding
• GO:0046872 metal ion binding

Cellular Component

• GO:0030430 host cell cytoplasm
• GO:0042025 host cell nucleus

External links

• PDB: RCSB:3pov, PDBe:3pov, PDBj:3pov
• PDBsum: 3pov
• PubMed: 21421561
• UniProt: P88925