Structure of PDB 3l2w Chain A

Receptor sequence

>3l2wA (length=365) Species: 11963 (Human spumaretrovirus)

AELDQLLQGHYIKGYPKQYTYFLEDGKVKVSRPEGVKIIPPQSDRQKIVL
QAHNLAHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNKAS
GPILRPDRPQKPFDKFFIDYIGPLPPSQGYLYVLVVVDGMTGFTWLYPTK
APSTSATVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFS
TPYHPQSSGKVERKNSDIKRLLTKLLVGRPTKWYDLLPVVQLALNNTYSP
VLKYTPHQLLFGIDSNTPFANQDTLDLTREEELSLLQEIRTSLYHPSTPP
ASSRSWSPVVGQLVQERVARPASLRPRWHKPSTVLKVLNPRTVVILDHLG
NNRTVSIDNLKPTSH

3D structure

• PDB: 3l2w Retroviral intasome assembly and inhibition of DNA strand transfer
• Chain: A
• Resolution: 3.2 Å

Enzymatic activity

• 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.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	I112 L113 R114 P115 E207 F208 S209 T210 Q215 S216 G218 K219 R222 R229 S258 P259 L347 R350 T351 T363	I103 L104 R105 P106 E198 F199 S200 T201 Q206 S207 G209 K210 R213 R220 S249 P250 L338 R341 T342 T354
BS02	dna	A	E221 R222 S225 K228 K262	E212 R213 S216 K219 K253
BS03	ZN	A	H62 H66 C96 C99	H53 H57 C87 C90
BS04	MN	A	D128 D185	D119 D176
BS05	MN	A	D128 E221	D119 E212
BS06	ELV	A	D128 D185 Y212 P214 Q215 E221	D119 D176 Y203 P205 Q206 E212

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding

Biological Process

• GO:0015074 DNA integration

External links

• PDB: RCSB:3l2w, PDBe:3l2w, PDBj:3l2w
• PDBsum: 3l2w
• PubMed: 20118915
• UniProt: P14350|POL_FOAMV Pro-Pol polyprotein (Gene Name=pol)