Structure of PDB 8wd8 Chain B

Receptor sequence

>8wd8B (length=750) Species: 277988 (Thermococcus thioreducens) [Search protein sequence]

MLMKVLTNMVKLNQDIIPNEIYLYKIFNKPEDGMNIYKIAYRNHGIVIDP
QNRIIATPSELEYSGKFAIEDEISFNELPENYQNRLVLRILRDNGISDHA
LSRTLQKYRKPKPFGDFEVIPEIRSSVIKHGGDFYLVLHLSHQIRSKKTL
WELVGRNKDALRDFLKEHRGTILLRDIASEHKVVYKPIFKRYNGDPDLIE
DNSNDVEHWYDYHLERYWNTPELKKEFYKKFGPVDLNQPIILAKPLRQHN
RGDLVHLLPQFVVPVYNAEQLNDILASEILEYLKLTSNQRISLLSRLIND
IKTNTNIIVSSLTELEANTFDVDLNDMLQVRNADNVKVTLSELEISKTRL
FTWMKSRKYPVILPYDIPQKLKKIEKIPVFIIVDSALSRDIQTFAKDEFR
YLISSLQKSLSNWVDFPILDIRDKYIFTIDLTSDKDIVNLSIKLVNLMKN
AELGLALIATRTKLPNETFDEVKKRLFSVNIISQVVNEATLYKRDKYNES
RLNLYVQHNLLFQILSKLGIKYYVLRHKFSYDYIVGIDVTPMKLSHGYIG
GSAVMFDSQGYIRKIIPVEIGEQMGESIDMKEFFKDMVVQFGKFGIDLEG
KSILILRDGKITKDEEEGLAYISKVFGIKITTFNIVKRHLLRIFANRKLY
LRLANSVYLLPHRIKQSVGTPVPLKLSEKRLILDGTITSQEITYNDIFEI
LLLSELNYGSISADMKLPAPVHYAHKFVRALRKGWRIREELLAEGFLYFV

3D structure

PDB

8wd8 Molecular mechanism for target recognition, dimerization, and activation of Pyrococcus furiosus Argonaute.

Chain

Resolution

2.9 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

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	Y37 Y41 R85 S126 A268 L280 T348 Y505 H508 D538 T540 P541 D608 G609 V636 K637 R638 Q666 K675 I711 S712 R732	Y37 Y41 R85 S126 A268 L280 T348 Y505 H508 D538 T540 P541 D608 G609 V636 K637 R638 Q666 K675 I711 S712 R732
BS02	dna	B	Y37 D49 P50 Y82 S141 H142 Q143 R175 L246 R247 K284 R290 L464 F469 K473 V485 V486 T490 V506 N509 Q513 H546 T612 K613 R642 T670 P671 G709 A713 M715 K716	Y37 D49 P50 Y82 S141 H142 Q143 R175 L246 R247 K284 R290 L464 F469 K473 V485 V486 T490 V506 N509 Q513 H546 T612 K613 R642 T670 P671 G709 A713 M715 K716
BS03	ZN	B	H249 H546	H249 H546
BS04	MG	B	Q513 V750	Q513 V750
BS05	MG	B	D538 H725	D538 H725
BS06	MG	B	D538 D608	D538 D608

Gene Ontology

	Molecular Function
GO:0003676	nucleic acid binding
GO:0003723	RNA binding

View graph for
Molecular Function

External links

PDB	RCSB:8wd8, PDBe:8wd8, PDBj:8wd8
PDBsum	8wd8
PubMed	38295801
UniProt	A0A0Q2M2Z1

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