Structure of PDB 4n76 Chain A

Receptor sequence

>4n76A (length=641) Species: 274 (Thermus thermophilus)

HLGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARR
AGGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKD
PGERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGAV
LDLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNALPGGLS
LLDYHASKGRLQGREGGHLTGLLVPVLTLEDSLALSLPWEERRRRTREIA
SWIGRRLGLGTPEAVRAQAYRLSIPKLMGRRAVSKPADALRVGFYRAQET
ALALLRLDGAQGWPEFLRRALLRAFGASGASLRLHTLHAHPSQGLAFREA
LRKAKEEGVQAVLVLTPPMAWEDRNRLKALLLREGLPSQILNVPLREEER
HRWENALLGLLAKAGLQVVALSGAYPAELAVGFDAGGRESFRFGGAACAV
GGDGGHLLWTLPEAQAGERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLL
RDGRVPQDEFALALEALAREGIAYDLVSVRKSGGGRVYPVQGRLADGLYV
PLEDKTFLLLTVHRDFRGTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPA
SGFAFPRLPAPLHLADRLVKEVGRLGIRHLKEVDREKLFFV

3D structure

• PDB: 4n76 Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage.
• Chain: A
• Resolution: 2.89 Å

Enzymatic activity

• Enzyme Commision number: 3.1.24.-

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	A170 R172 I173 L279 L281 R286 M413 W415 K422 Q433 I434 N436 H445 R446 N449 K457 R580 R611 T613 P614 R615 P650 R651 H657 R661 V685	A168 R170 I171 L235 L237 R242 M369 W371 K378 Q389 I390 N392 H401 R402 N405 K413 R536 R567 T569 P570 R571 P606 R607 H613 R617 V641
BS02	dna	A	L267 S276 S328 K329 H445 G481 K575 D590 V606 R608 F610 F647 F649 K664	L229 S232 S284 K285 H401 G437 K531 D546 V562 R564 F566 F603 F605 K620
BS03	DT	A	P37 G38 R39	P35 G36 R37

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003723 RNA binding
• GO:0004519 endonuclease activity
• GO:0004520 DNA endonuclease activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006260 DNA replication
• GO:0044355 clearance of foreign intracellular DNA

External links

• PDB: RCSB:4n76, PDBe:4n76, PDBj:4n76
• PDBsum: 4n76
• PubMed: 24374628
• UniProt: Q746M7|AGO_THET2 Protein argonaute (Gene Name=ago)