Structure of PDB 7eu0 Chain B Binding Site BS03

Receptor Information
>7eu0 Chain B (length=1054) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NLSELGEGFLQSFCKKAATSFFDKYGLISHQLNSYNYFIEHGLQNVFQSF
GEMLVEPSWRYATVKFGEVTVEKPTFFSDDKELEFLPWHARLQNMTYSAR
IKVNVQVEVFDILIGSIPVMVKSILCKTSEKGKENCKKGDCAFDQGGYFV
IKGAEKVFIAQEQMCTKRLWISNSPWTVSFRSENKRNRFIVRLSENEKAE
DYKRREKVLTVYFLSTEIPVWLLFFALGVSSDKEAMDLIAFDGDDASITN
SLIASIHVADAVCEAFRCGNNALTYVEQQIKSTKFPPAESVDECLHLYLF
PGLQSLKKKARFLGYMVKCLLNSYAGKRKCENRDSFRNKRIELAGELLER
EIRVHLAHARRKMTRAMQKHLSGKPIEHYLDASVITNGLSRAFSTGAWSH
PFRKMERVSGVVANLGRANPLQTLIDLRRTRQQVDARYPHPSHWGRVCFL
STPDGENCGLVKNMSLLGLVSTQSLESVVEKLFACGMEELMDDTCTPLFG
KHKVLLNGDWVGLCADSESFVAELKSRRRQSELPREMEIKRDKDDNEVRI
FTDAGRLLRPLLVVENLQKLKQEQYPFDHLLDHGILELIGIEEEEDCNTA
WGIKQLLKEPKIYTHCELDLSFLLGVSCAVVPFANHDHGRRVLYQSQKHC
QQAIGFSSTNPNIRCDTLSQQLFYPQKPLFKTLASECLKKEVLFNGQNAI
VAVNVHLGYNQEDSIVMNKASLERGMFRSEQIRSYKAEVDVQFGKTHDSL
EDDGFPFIGANMSTGDIVIGRCHSIKLKHTERGIVQKVVLSSNDEGKNFA
AVSLRQVRSPCLGDKFSSMHGQKGVLGYLEEQQNFPFTIQGIVPDIVINP
HAFPSRQTPGQLLEAALSKGIACPIQAYTKLTRHATPFSTPGVTEITEQL
HRAGFSRWGNERVYNGRSGEMMRSMIFMGPTFYQRLVHMSEDKVKFRNTG
PVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGASANLHERLFTLSDSSQ
MHICRKCKTYANGPYCRVCVSSDHVVRVYVPYGAKLLCQELFSMGITLNF
DTKL
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain7eu0 Chain B Residue 2001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7eu0 Pol IV and RDR2: A two-RNA-polymerase machine that produces double-stranded RNA.
Resolution3.16 Å
Binding residue
(original residue number in PDB)		C1108 C1111
Binding residue
(residue number reindexed from 1)		C1004 C1007
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0016779 nucleotidyltransferase activity
GO:0032549 ribonucleoside binding
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0030422 siRNA processing
GO:0031047 regulatory ncRNA-mediated gene silencing
GO:0035194 regulatory ncRNA-mediated post-transcriptional gene silencing
GO:0050776 regulation of immune response
GO:0050832 defense response to fungus
GO:0080188 gene silencing by siRNA-directed DNA methylation
GO:0141007 siRNA-mediated retrotransposon silencing by heterochromatin formation
Cellular Component
GO:0000418 RNA polymerase IV complex
GO:0000419 RNA polymerase V complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0000792 heterochromatin
GO:0005634 nucleus
GO:0030880 RNA polymerase complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7eu0, PDBe:7eu0, PDBj:7eu0
PDBsum7eu0
PubMed34941388
UniProtQ9LK40|NRPD2_ARATH DNA-directed RNA polymerases IV and V subunit 2 (Gene Name=NRPD2)

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