Structure of PDB 5i4a Chain C

Receptor sequence

>5i4aC (length=635) Species: 443254 (Marinitoga piezophila KA3)

AYLNLYKIDIPKKIKRLYFYNPDMEPKLFARNLSRVNNFKFQDDLVWIEI
PDIDFQITPKNVFQYKVEKEEIIKEEEDKKLFVKTLYKYIKKLFLDNDFY
FKKGNNFISNSEVFSLDSNENVNAHLTYKIKIHNISNEYYLSILPKFTFL
SKEPALESAIKSGYLYNIKSGKSFPYISGLDGILKIDINQIVEVAYPENY
LFNFTTRDAEKYGFSKEVHEIYKNKVFEGFKKIPKTLGFLNKITNLNENY
QLKDGYKIFINVIYKFKNGESRYAKDVFKYSFYKNEQPLKAIFFFSSKKQ
FFEVQKSLKELFHNKHSVFYRAAAELGFSKVEFLRDSKTKSSAFLYNPEE
FTVKNTEFINQIEDNVMAIVLLDKYIGNIDPLVRNFPDNLILQPILKEKL
EDIKPFIIKSYVYKMGNFIPECKPFILKKMEDKEKNLYIGIDLSHDTYAR
KTNLCIAAVDNTGDILYIGKHKNLELNEKMNLDILEKEYIKAFEKYIEKF
NVSPENVFILRDGRFIEDIEIIKNFISYNDTKYTLVEVNKNTNINSYDDL
KEWIIKLDENTYIYYPKTFLNQKGVEVKILENNTDYTIEEIIEQIYLLTR
VAHSTPYTNYKLPYPLHIANKVALTDYEWKLYIPY

3D structure

• PDB: 5i4a A bacterial Argonaute with noncanonical guide RNA specificity.
• Chain: C
• Resolution: 1.949 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	rna	C	Y89 K105 N107 N108 K131 K133 Y166 N169 S172 V198 Y200 Y204 T209 R211 L376 Y379 I380 P398 I399 L400 K403 I411 S414 Y415 K418 S608 T609 T612 Y636	Y87 K103 N105 N106 K129 K131 Y164 N167 S170 V194 Y196 Y200 T205 R207 L372 Y375 I376 P394 I395 L396 K399 I407 S410 Y411 K414 S604 T605 T608 Y632

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

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:5i4a, PDBe:5i4a, PDBj:5i4a
• PDBsum: 5i4a
• PubMed: 27035975
• UniProt: H2J4R4|AGO_MARPK Protein argonaute (Gene Name=ago)