Structure of PDB 5xou Chain B

Receptor sequence

>5xouB (length=574) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence]

LGKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARRA
GGVTVRMGDGLASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKDP
GERSVLSALARRLLQERLRRLEGVWVEGLAVYRREGWRVLGGAVLDLWVS
DSGAFLLEVDPAYRILCLSLPWEERRRRTREIASWIGRRLGLGTPEAVRA
QAYRLSIPKLMGRRAVSKPADALRVGFYRAQETALALLRLDGAQGWPEFL
RRALLRAFGASGASLRLHTLHAHPSQGLAFREALRKAKEEGVQAVLVLTP
PMAWEDRNRLKALLLREGLPSQILNVPLREEERHRWENALLGLLAKAGLQ
VVALSGAYPAELAVGFDAGGRESFRFGGAACAVGGDGGHLLWTLPEAQAG
ERIPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQDEFALALEAL
AREGIAYDLVSVRKSGGGRVYPVQGRLADGLYVPLEDKTFLLLTVHRDFR
GTPRPLKLVHEAGDTPLEALAHQIFHLTRLYPASGFAFPRLPAPLHLADR
LVKEVGRLGIRHLKEVDREKLFFV

3D structure

PDB

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

Chain

Resolution

2.63 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	B	A170 R172 I173 R286 M413 W415 K422 Q433 I434 N436 R446 N449 E512 R513 P550 Q551 R580 R611 T613 P614 R615 A644 S645 P650 R651 H657 R661 V685	A162 R164 I165 R175 M302 W304 K311 Q322 I323 N325 R335 N338 E401 R402 P439 Q440 R469 R500 T502 P503 R504 A533 S534 P539 R540 H546 R550 V574
BS02	dna	B	P44 A47 S328 K329 W415 H445 G480 G481 G547 R574 K575 S576 D590 V606 R608 F610 R640 F647 A648 F649 K664 R668	P41 A44 S217 K218 W304 H334 G369 G370 G436 R463 K464 S465 D479 V495 R497 F499 R529 F536 A537 F538 K553 R557

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

View graph for
Biological Process

External links

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

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