Structure of PDB 5mma Chain A

Receptor sequence

>5mmaA (length=367) Species: 11963 (Human spumaretrovirus)

DAELDQLLQGHYIKGYPKQYTYFLEDGKVKVSRPEGVKIIPPQSDRQKIV
LQAHNLAHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNKA
SGPILRPDRPQKPFDKFFIDYIGPLPPSQGYLYVLVVVDGMTGFTWLYPT
KAPSTSATVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEF
STPYHPQSSGKVERKNSDIKRLLTKLLVGRPTKWYDLLPVVQLALNNTYS
PVLKYTPHQLLFGIDSNTPFANQDTLDLTREEELSLLQEIRTSLYHPSTP
PASSRSWSPVVGQLVQERVARPASLRPRWHKPSTVLKVLNPRTVVILDHL
GNNRTVSIDNLKPTSHQ

3D structure

• PDB: 5mma Structure-Guided Optimization of HIV Integrase Strand Transfer Inhibitors.
• Chain: A
• Resolution: 2.55 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 S209 T210 Q215 S216 G218 K219 R222 R229 S258 P259 L347 N348 R350 T351	I104 L105 R106 P107 E199 S201 T202 Q207 S208 G210 K211 R214 R221 S250 P251 L339 N340 R342 T343
BS02	dna	A	E221 R222 S225 K228 K262	E213 R214 S217 K220 K254
BS03	ZN	A	H62 H66 C96 C99	H54 H58 C88 C91
BS04	MG	A	D128 D185	D120 D177
BS05	MG	A	D128 E221	D120 E213
BS06	VHT	A	D128 D185 P214 E221	D120 D177 P206 E213

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding

Biological Process

• GO:0015074 DNA integration

External links

• PDB: RCSB:5mma, PDBe:5mma, PDBj:5mma
• PDBsum: 5mma
• PubMed: 28737946
• UniProt: P14350|POL_FOAMV Pro-Pol polyprotein (Gene Name=pol)