Structure of PDB 5xpg Chain A

Receptor sequence

>5xpgA (length=684) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence]

NHLGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVAR
RAGGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPK
DPGERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGA
VLDLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNAYDRRT
WELLRLGEEDPKELPLPGGLSLLDYHASKGRLQGREGGRVAWVADPKDPR
KPIPHLTGLLVPVLTLEDLHEEEGSLALSLPWEERRRRTREIASWIGRRL
GLGTPEAVRAQAYRLSIPKLMGRRAVSKPADALRVGFYRAQETALALLRL
DGAQGWPEFLRRALLRAFGASGASLRLHTLHAHPSQGLAFREALRKAKEE
GVQAVLVLTPPMAWEDRNRLKALLLREGLPSQILNVPLREEERHRWENAL
LGLLAKAGLQVVALSGAYPAELAVGFDAGGRESFRFGGAACAVGGDGGHL
LWTLPEAQAGERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQ
DEFALALEALAREGIAYDLVSVRKSGGGRVYPVQGRLADGLYVPLEDKTF
LLLTVHRDFRGTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPASGFAFPR
LPAPLHLADRLVKEVGRLGIRHLKEVDREKLFFV

3D structure

PDB

5xpg Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes.

Chain

Resolution

2.8 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)	Binding affinity
BS01	dna	A	R39 V42 Y43 A170 Y171 R172 I173 R192 T201 S280 R286 M413 W415 K422 Q433 I434 N436 H445 R446 N449 K457 E512 R513 R580 D609 T613 R615 A644 S645 A648 R651 H657 R661	R38 V41 Y42 A169 Y170 R171 I172 R191 T200 S279 R285 M412 W414 K421 Q432 I433 N435 H444 R445 N448 K456 E511 R512 R579 D608 T612 R614 A643 S644 A647 R650 H656 R660
BS02	rna	A	R114 E268 P412 M413 N436 H445 R548 R574 K575 S576 R608 F647	R113 E267 P411 M412 N435 H444 R547 R573 K574 S575 R607 F646

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:5xpg, PDBe:5xpg, PDBj:5xpg
PDBsum	5xpg
PubMed	28911094
UniProt	Q746M7\|AGO_THET2 Protein argonaute (Gene Name=ago)

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