Structure of PDB 5xpa Chain A

Receptor sequence

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

HLGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARR
AGGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKD
PGERSVLSALARRLLQERLRRLEGVWVEGLAVYRREHARGPGWRVLGGAV
LDLWVSDSGAFLLEVDPAYRILCEMSLEAWLAQGHPLPKRVRNAYDRRTW
ELLRLGEEDPKELPLPGGLSLLDYHASKGRLQGREGGRVAWVADPKDPRK
PIPHLTGLLVPVLTLEDLHEELALSLPWEERRRRTREIASWIGRRLGLGT
PEAVRAQAYRLSIPKLMGRRAVSKPADALRVGFYRAQETALALLRLDGAQ
GWPEFLRRALLRAFGASGASLRLHTLHAHPSQGLAFREALRKAKEEGVQA
VLVLTPPMAWEDRNRLKALLLREGLPSQILNVPLREEERHRWENALLGLL
AKAGLQVVALSGAYPAELAVGFDAGGRESFRFGGAACAVGDGGHLLWTLP
EAQAGERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQDEFAL
ALEALAREGIAYDLVSVRKSGGGRVYPVQGRLADGLYVPLEDKTFLLLTV
HRDFRGTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPASGFAFPRLPAPL
HLADRLVKEVGRLGIRHLKEVDREKLFFV

3D structure

PDB

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

Chain

Resolution

2.9 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	A170 R172 I173 R192 L267 S280 R286 P412 M413 W415 K422 Q433 I434 N436 R446 N449 K457 R482 R580 G612 T613 R615 S645 A648 R651 H657 R661	A168 R170 I171 R190 L265 S275 R281 P407 M408 W410 K417 Q428 I429 N431 R441 N444 K452 R477 R574 G606 T607 R609 S639 A642 R645 H651 R655
BS02	rna	A	E268 H271 K329 H445 R548 S576 D609 F647 K664	E266 H269 K324 H440 R542 S570 D603 F641 K658

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

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Molecular Function

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Biological Process

External links

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

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