Structure of PDB 5g5t Chain A

Receptor sequence

>5g5tA (length=670) Species: 2190 (Methanocaldococcus jannaschii)

MVLNKVTYKINAYKIKEEFIPKEVHFYRIKSRFVNFYGGMIINKKDKSFV
LPYKVDNKVLKPIDIEYIKSLKLEYVKPEIAEKLVRGYLKSVHKIEPELS
RIIKNIRKHKVVENIKVESYCEYEVKKHDGDYYLILNFRHTASITKHLWD
FVNRDKALLEEYVGKKIIFKPNPKVRYTISLVDAPNPQKIEEIMSHIIKY
YKWSEDMVKSTFGEIDYNQPIMYCEEILEPFAPQFCNLVFYMDELDSYIL
KELQSYWRLSNENKGKIINEIAKKLRFIDNTPKELEFMKFNNTPLLVKDV
NKNPTKIYSTNTLFTWIKIYLPYDVPEIIRNKNLLTYILIDEEIKDELKA
IKDKVNKMFRNYNKIANKTELPKFNYANRWKYFSTDDIRGIIKEIKSEFN
DEICFALIIGKEYEILKKQLFDLKIISQNILWENWRKDDKGYMTNNLLIQ
IMGKLGIKYFILDSKTPYDYIMGLDTGNHRVGGCTVVYDSEGKIRRIQPI
ETPERLHLPYVIEYLENKANIDMENKNILFLRDGFIQNSERNDLKEISKE
LNSNIEVISIRKNNKYKVFTSDYRIGSVFGNDGIFLPHKTPFGSNPVKLS
TWLRFNCGNEEGLKINESIMQLLYDLTKMNYSAYLRIPAPIHYADKFVKA
LGKNWKIDEELLKHGFLYFI

3D structure

• PDB: 5g5t Structural and mechanistic insights into an archaeal DNA-guided Argonaute protein.
• Chain: A
• Resolution: 2.85 Å

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	F45 H157 F186 N189 K191 Y194 E209 I210 H213 Y217 Y218 E243 E246 P247 F248 Q457 N458 I459 L460 Q479 H625 G630 S631 N632 S669 A670 L678 R679	F36 H140 F169 N172 K174 Y177 E192 I193 H196 Y200 Y201 E226 E229 P230 F231 Q428 N429 I430 L431 Q450 H588 G593 S594 N595 S632 A633 L635 R636
BS02	MG	A	Q457 Q479	Q428 Q450

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:0046872 metal ion binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0044355 clearance of foreign intracellular DNA
• GO:0051607 defense response to virus

External links

• PDB: RCSB:5g5t, PDBe:5g5t, PDBj:5g5t
• PDBsum: 5g5t
• PubMed: 28319084
• UniProt: Q58717|AGO_METJA Protein argonaute (Gene Name=ago)