Structure of PDB 6d8p Chain A Binding Site BS03

Receptor Information
>6d8p Chain A (length=758) Species: 349102 (Cereibacter sphaeroides ATCC 17025) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RQLVSNGFEVNLPDQVEVIVRDLPDPSKVKEERTRLMGYWFVHWFDGKLF
HLRIKAGGPNVDGEHRAIRTAEHPWLLRARLDDALEEALPKYAAVKKRPF
TFLAQKDELIDAAATAAGLSHRLLNSFKVIPRFALSPKIYEPVDGTTRVG
VFVTIGMRYDIEASLRDLLEAGIDLRGMYVVRRKRQPGERGLLGRVRAIS
DDMVQLFEETDLASVNVNDAKLEGSKENFTRCLSALLGHNYKKLLNALDD
QEAGYRTGPRFDDAVRRMGEFLAKKPIRLADNINAQVGDRIVFSNEGQAR
NVRLAPKVEYVFDRTGAKSAEYAWRGLSQFGPFDRPSFANRSPRILVVYP
SSTQGKVENFLSAFRDGMGSNYSGFSKGFVDLMGLTKVEFVMCPVEVSSA
DRNGAHTKYNSAIEDKLAGAGEVHAGIVVLFEDHARLPDDRNPYIHTKSL
LLTLGVPTQQVRMPTVLLEPKSLQYTLQNFSIATYAKLNGTPWTVNHDKA
INDELVVGMGLAELSGSRTEKRQRFVGITTVFAGDGSYLLGNVSKECEYE
GYSDAIRESMTGILRELKKRNNWRPGDTVRVVFHAHRPLKRVDVASIVFE
CTREIGSDQNIQMAFVTVSHDHPFVLIDRSERGLEAYKGSTARKGVFAPP
RGAISRVGRLTRLLAVNSPQLIKRANTPLPTPLLVSLHPDSTFKDVDYLA
EQALKFTSLSWRSTLPAATPVTIFYSERIAELLGRLKSIPNWSSANLNIK
LKWSRWFL
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain6d8p Chain A Residue 801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6d8p Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		L108 P109 K110
Binding residue
(residue number reindexed from 1)		L89 P90 K91
Annotation score4
Enzymatic activity
Enzyme Commision number ?
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:6d8p, PDBe:6d8p, PDBj:6d8p
PDBsum6d8p
PubMed29996105
UniProtA4WYU7|AGO_CERS5 Protein argonaute (Gene Name=ago)

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