Structure of PDB 7eu0 Chain M

Receptor sequence

>7eu0M (length=1052) Species: 3702 (Arabidopsis thaliana)

TNRSTVKISNVPQTIVADELLRFLELHLGEDTVFALEIPTTRDNWKPRDF
ARVQFTTLEVKSRAQLLSSQSKLLFKTHNLRLSEAYDDIIPRPVDPRKRL
DDIVLTVGFPESDEKRFCALEKWDGVRCWILTEKRRVEFWVWESGDCYKI
EVRFEDIIETLSCCVNGDASEIDAFLLKLKYGPKVFKRVTDRYRFCKEDF
DFMWIRTTDFSGSKSIGTSTCFCLEVHNGSTMLDIFSGLPYYREDTLSLT
YVDGKTFASAAQIVPLLNAAILGLEFPYEILFQLNALVHAQKISLFAASD
MELIKILRGMSLETALVILKKLHQQSSICYDPVFFVKTQMASAYKRLTEQ
NIMSCQRAYVTPSKIYLLGPELETANYVVKNFAEHVSDFMRVTFVEEDWS
KLPANALSVNSKEGYFVKPSRTNIYNRVLSILGEGITVGPKRFEFLAFSA
SQLRGNSVWMFASNEKVKAEDIREWMGCFRKIRSISKCAARMGQLFSASR
QTLIVRAQDVEQIPDIEVTTDGADYCFSDGIGKISLAFAKQVAQKCGLSH
VPSAFQIRYGGYKGVIAVDRSSFRKLSLRDSMLKFDSNNRMLNVTRWTES
MPCFLNREIICLLSTLGIEDAMFEAMQAVHLSMLGNMLEDRDAALNVLQK
LSGENSKNLLVKMLLQGYAPSSEPYLSMMLRVHHESQLSELKSRCRILVP
KGRILIGCMDEMGILEYGQVYVRVTLTKAELKSRDQSYFRKIDEETSVVI
GKVVVTKNPCLHPGDIRVLDAIYEVHFEEKGYLDCIIFPQKGERPHPNEC
SGGDLDGDQFFVSWDEKIIPSEMDPPMDYAGSRPRLMDHDVTLEEIHKFF
VDYMISDTLGVISTAHLVHADRDPEKARSQKCLELANLHSRAVDFAKTGA
PAEMPYALKPREFPDFLERFEKPTYISESVFGKLYRAVKSSLATAKAHRD
MYGEKLTSLMIYYGAANEEEILTGILKTKEMYLARDNRRYGDMKDRITLS
VKDLHKEAMGWFEKSCEDEQQKKKLASAWYYVTYNPNHRDEKLTFLSFPW
IV

3D structure

• PDB: 7eu0 Pol IV and RDR2: A two-RNA-polymerase machine that produces double-stranded RNA.
• Chain: M
• Resolution: 3.16 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.

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	M	Y92 N431 E625 F630 N632 R722 N784 L885 G886 S889 Y932 R937 E944 R1039	Y86 N405 E599 F604 N606 R696 N758 L859 G860 S863 Y906 R911 E918 R985
BS02	rna	M	R417 S477 Q478 S523 R584 K783 D834 D1046 D1049	R391 S451 Q452 S497 R558 K757 D808 D992 D995
BS03	MG	M	D830 D832 D834	D804 D806 D808

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003727 single-stranded RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0005515 protein binding
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding
• GO:0071667 DNA/RNA hybrid binding

Biological Process

• GO:0009751 response to salicylic acid
• GO:0010468 regulation of gene expression
• GO:0010495 siRNA-mediated long-distance post-transcriptional gene silencing
• GO:0030422 siRNA processing
• GO:0031047 regulatory ncRNA-mediated gene silencing
• GO:0050832 defense response to fungus
• GO:0140745 siRNA transcription

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus

External links

• PDB: RCSB:7eu0, PDBe:7eu0, PDBj:7eu0
• PDBsum: 7eu0
• PubMed: 34941388
• UniProt: O82504|RDR2_ARATH RNA-dependent RNA polymerase 2 (Gene Name=RDR2)