Structure of PDB 3hjf Chain A

Receptor sequence

>3hjfA (length=665) Species: 262724 (Thermus thermophilus HB27)

HLGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARR
AGGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKD
PGERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGAV
LDLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNAYDRRTW
ELLRLGEEDPKEGLSLLDYHASKGRLQGREGGRVAWVADPKDPRKPIPHL
TGLLVPVLTLEDLSLPWEERRRRTREIASWIGRRLGLGTPEAVRAQAYRL
SIPKLMGRRAVSKPADALRVGFYRAQETALALLRLDGAQGWPEFLRRALL
RAFGASGASLRLHTLHAHPSQGLAFREALRKAKEEGVQAVLVLTPPMAWE
DRNRLKALLLREGLPSQILNVPLREEERHRWENALLGLLAKAGLQVVALS
GAYPAELAVGFDAGGRESFRFGGAACAVGGDGGHLLWTLPEAQAGERIPQ
EVVWDLLEETLWAFRRKAGRLPSRVLLLREGRVPQDEFALALEALAREGI
AYDLVSVRKSGGGRVYPVQGRLADGLYVPLEDKTFLLLTVRGTPRPLKLV
HEAGDTPLEALAHQIFHLTRLYPASGFAFPRLPAPLHLADRLVKEVGRLG
IRHLKEVDREKLFFV

3D structure

• PDB: 3hjf Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes.
• Chain: A
• Resolution: 3.056 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	Y43 P44 A170 Y171 R172 P412 M413 W415 R418 K422 Q433 I434 N436 R446 N449 G511 P550 R580 T613 R615 A644 A648 R651 H657 R661	Y41 P42 A168 Y169 R170 P396 M397 W399 R402 K406 Q417 I418 N420 R430 N433 G495 P534 R564 T593 R595 A624 A628 R631 H637 R641
BS02	rna	A	K329 H445 G547 R574 K575 S576	K313 H429 G531 R558 K559 S560

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:3hjf, PDBe:3hjf, PDBj:3hjf
• PDBsum: 3hjf
• PubMed: 19812667
• UniProt: Q746M7|AGO_THET2 Protein argonaute (Gene Name=ago)