Structure of PDB 5gq9 Chain A

Receptor sequence

>5gq9A (length=638) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence]

HLGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARR
AGGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKD
PGERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGAV
LDLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNAYDRRTW
ELLDYHASKGRLTGLLVPVLTLEDLHEESLALSLPWEERRRRTREIASWI
GRRLGLGTPEAVRAQAYRLSIPKLMGRRAVSKPADALRVGFYRAQETALA
LLRLDGAQGWPEFLRRALLRAFGASGASLRLHTLHAHPSQGLAFREALRK
AKEEGVQAVLVLTPPMAWEDRNRLKALLLREGLPSQILNVPLREEERHRW
ENALLGLLAKAGLQVVALSGAYPAELAVGFDAGGRESFRFGGAACAVGGD
GGHLLWTLPEAQAGERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRDG
RVPQDEFALALEALAREGIAYDLVSVRKSGGGRVYPVQGRLADGLYVPLE
DKTFLLLTVHRDFRGTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPASGF
AFPRLPAPLHLADRLVKEVGRLGIRHLKEVDREKLFFV

3D structure

PDB

5gq9 Crystal structure of Thermus thermophilus Argonaute in complex with g1C siDNA and DNA target

Chain

Resolution

2.7 Å

3D
structure

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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)
BS01	dna	A	Y43 A170 Y171 R172 I173 R192 V264 L265 L279 R286 M413 W415 R418 K422 Q433 I434 L435 N436 H445 R446 N449 K457 G511 E512 R513 P550 Q551 R580 R611 T613 P614 R615 A644 A648 P650 R651 H657 R661	Y41 A168 Y169 R170 I171 R190 V219 L220 L232 R239 M366 W368 R371 K375 Q386 I387 L388 N389 H398 R399 N402 K410 G464 E465 R466 P503 Q504 R533 R564 T566 P567 R568 A597 A601 P603 R604 H610 R614
BS02	dna	A	Y43 P44 A47 R51 R81 R114 L267 E268 H271 S328 K329 H445 G547 R574 K575 S576 D590 V606 R608 F610 F647 K664	Y41 P42 A45 R49 R79 R112 L222 E223 H226 S281 K282 H398 G500 R527 K528 S529 D543 V559 R561 F563 F600 K617
BS03	MG	A	D478 E512 D546	D431 E465 D499
BS04	MG	A	D478 D660	D431 D613

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

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:5gq9, PDBe:5gq9, PDBj:5gq9
PDBsum	5gq9
PubMed
UniProt	Q746M7\|AGO_THET2 Protein argonaute (Gene Name=ago)

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