Structure of PDB 4e7k Chain A Binding Site BS06

Receptor Information

>4e7k Chain A (length=366) Species: 11963 (Human spumaretrovirus)

DAELDQLLQGHYIKGYPKQYTYFLEDGKVKVSRPEGVKIIPPQSDRQKIV
LQAHNLAHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNKA
SGPILRPDRPQKPFDKFFIDYIGPLPPSQGYLYVLVVVDGMTGFTWLYPT
KAPSTSATVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEF
STPYHPQSSGKVERKNSDIKRLLTKLLVGRPTKWYDLLPVVQLALNNTYS
PVLKYTPHQLLFGIDSNTPFANQDTLDLTREEELSLLQEIRTSLYHPSTP
PASSRSWSPVVGQLVQERVARPASLRPRWHKPSTVLKVLNPRTVVILDHL
GNNRTVSIDNLKPTSH

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 4e7k Chain A Residue 403

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4e7k 3'-Processing and strand transfer catalysed by retroviral integrase in crystallo.
• Resolution: 3.02 Å
• Binding residue (original residue number in PDB): D128 D185
• Binding residue (residue number reindexed from 1): D120 D177
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): D128 D185 E221
• Catalytic site (residue number reindexed from 1): D120 D177 E213
• Enzyme Commision number: 2.7.7.-
  2.7.7.49: RNA-directed DNA polymerase.
  2.7.7.7: DNA-directed DNA polymerase.
  3.1.-.-
  3.1.26.4: ribonuclease H.
  3.4.23.-

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding

Biological Process

• GO:0015074 DNA integration

External links

• PDB: RCSB:4e7k, PDBe:4e7k, PDBj:4e7k
• PDBsum: 4e7k
• PubMed: 22580823
• UniProt: P14350|POL_FOAMV Pro-Pol polyprotein (Gene Name=pol)