Structure of PDB 6d9k Chain F

Receptor sequence

>6d9kF (length=755) Species: 349102 (Cereibacter sphaeroides ATCC 17025) [Search protein sequence]

RQLVSNGFEVNLPDQVEVIVRDLPDPSKVKEERTRLMGYWFVHWFDGKLF
HLRIKAGGPNVDGEHRAIRTAEHPWLLRARLDDALEEALPKYAAVKKRPF
TFLAQKDELIDAAATAAGLSHRLLNSFKVIPRFALSPKIYEPVDGTTRVG
VFVTIGMRYDIEASLRDLLEAGIDLRGMYVVRRKRQRGLLGRVRAISDDM
VQLFEETDLASVNVNDAKLEGSKENFTRCLSALLGHNYKKLLNALDDQEA
GYRTGPRFDDAVRRMGEFLAKKPIRLADNINAQVGDRIVFSNEGQARNVR
LAPKVEYVFDRTGAKSAEYAWRGLSQFGPFDRPSFANRSPRILVVYPSST
QGKVENFLSAFRDGMGSNYSGFSKGFVDLMGLTKVEFVMCPVEVSSADRN
GAHTKYNSAIEDKLAGAGEVHAGIVVLFEDHARLPDDRNPYIHTKSLLLT
LGVPTQQVRMPTVLLEPKSLQYTLQNFSIATYAKLNGTPWTVNHDKAIND
ELVVGMGLAELSGSRTEKRQRFVGITTVFAGDGSYLLGNVSKECEYEGYS
DAIRESMTGILRELKKRNNWRPGDTVRVVFHAHRPLKRVDVASIVFECTR
EIGSDQNIQMAFVTVSHDHPFVLIDRSERGLEAYKGSTARKGVFAPPRGA
ISRVGRLTRLLAVNSPQLIKRANTPLPTPLLVSLHPDSTFKDVDYLAEQA
LKFTSLSWRSTLPAATPVTIFYSERIAELLGRLKSIPNWSSANLNIKLKW
SRWFL

3D structure

PDB

6d9k Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA.

Chain

Resolution

2.0 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	rna	F	P43 P45 W63 R151 G175 M176 Y178 L211 E242 G243 S244 R275 A454 Y463 K467 Q478 Q479 R481 T484 T495 N498 F499 K506 R537 R543 R606 K609 R610 K692 R731 S732 P735 A737 F743 R754 L777	P24 P26 W44 R132 G156 M157 Y159 L189 E220 G221 S222 R253 A432 Y441 K445 Q456 Q457 R459 T462 T473 N476 F477 K484 R515 R521 R584 K587 R588 K670 R709 S710 P713 A715 F721 R732 L755
BS02	dna	F	P45 R52 H62 W63 R97 K157 E246 T249 Y260 Y329 Y341 Y494 A531 E532 R541 H605 R606 S638 D640 Q689 L690	P26 R33 H43 W44 R78 K138 E224 T227 Y238 Y307 Y319 Y472 A509 E510 R519 H583 R584 S616 D618 Q667 L668

Gene Ontology

	Molecular Function
GO:0003676	nucleic acid binding
GO:0003677	DNA binding
GO:0003723	RNA binding
GO:0004520	DNA endonuclease activity
GO:0046872	metal ion binding

	Biological Process
GO:0044355	clearance of foreign intracellular DNA

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:6d9k, PDBe:6d9k, PDBj:6d9k
PDBsum	6d9k
PubMed	29996105
UniProt	A4WYU7\|AGO_CERS5 Protein argonaute (Gene Name=ago)

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