Structure of PDB 5xq2 Chain A

Receptor sequence

>5xq2A (length=679) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence]

LGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARRA
GGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKDP
GERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGAVL
DLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNAYDRRTWE
LLRLGEEDPKELPLPGGLSLLDYHASKGRLQGREGGRVAWVADPKDPRKP
IPHLTGLLVPVLTLEDLHEEEGSLALSLPWEERRRRTREIASWIGRRLGL
GTPEAVRAQAYRLSIPKLMGVSKPADALRVGFYRAQETALALLRLDGAQG
WPEFLRRALLRAFGASGASLRLHTLHAHPSQGLAFREALRKAKEEGVQAV
LVLTPPMAWEDRNRLKALLLREGLPSQILNVPLREEERHRWENALLGLLA
KAGLQVVALSGAYPAELAVGFDAGGRESFRFGGAACAVGGDGGHLLWTLP
EAQAGERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQDEFAL
ALEALAREGIAYDLVSVRKSGGGRVYPVQGRLADGLYVPLEDKTFLLLTV
HRDFRGTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPASGFAFPRLPAPL
HLADRLVKEVGRLGIRHLKEVDREKLFFV

3D structure

PDB

5xq2 Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes

Chain

Resolution

3.33 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	A170 Y171 R172 I173 R192 R286 M413 W415 Q433 I434 L435 N436 H445 R446 G511 R513 R580 R611 T613 P614 R615 A644 A648 P650 R651 H657 R661 V685	A167 Y168 R169 I170 R189 R283 M407 W409 Q427 I428 L429 N430 H439 R440 G505 R507 R574 R605 T607 P608 R609 A638 A642 P644 R645 H651 R655 V679
BS02	dna	A	A47 R51 R114 E268 S328 K329 W415 H445 D478 G480 G481 E483 R486 G547 R548 R574 K575 S576 G577 D590 V606 F610 F647 F649 R668	A44 R48 R111 E265 S322 K323 W409 H439 D472 G474 G475 E477 R480 G541 R542 R568 K569 S570 G571 D584 V600 F604 F641 F643 R662
BS03	dna	A	Y197 L217 P218 Y226 H227 I254 P255	Y194 L214 P215 Y223 H224 I251 P252

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:5xq2, PDBe:5xq2, PDBj:5xq2
PDBsum	5xq2
PubMed	28911094
UniProt	Q746M7\|AGO_THET2 Protein argonaute (Gene Name=ago)

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