Structure of PDB 8hyj Chain A Binding Site BS03

Receptor Information
>8hyj Chain A (length=1141) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GITFALASHHEICIQSISESAINHPSQLTNAFLGLPLEFGKCESCGATEP
DKCEGHFGYIQLPVPIYHPAHVNELKQMLSLLCLKCLKIKEASQISIKDR
ASDGASYLELKLPSRSRLQPGCWNFLERYGYRYGSDYTRPLLAREVKEIL
RRIPEESRKKLTAKGHIPQEGYILEYLPVPPNCLSPSRIELKDVLKKVIA
IKSSRSGETNFESHKAEASEMFRVVDTYLKGSGFSSRSVITGDAYRHVNE
VGIPIEIAQRITFEERVSVHNRGYLQKLVDDKLCLSYTQGSTTYSLRDGS
KGHTELKPGQVVHRRVMDGDVVFINRPPTTHKHSLQALRVYVHEDNTVKI
NPLMCSPLSADFDGDCVHLFYPQSLSAKAEVMELFSVEKQLLSSHTGQLI
LQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPALRKSSKSGPA
WTVFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSI
FLEKGPKETLGFFDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLI
IREISPMVSRLRLSYRDELQLENSIHKVKEVAANFMLKSYSIRNLIDIKS
NSAITKLVQQTGFLGLQLSDKKKFYTKTLVEDMAIFCKRKYGRISSSGDF
GIVKGCFFHGLDPYEEMAHSIAAREVIVRSSRGLAEPGTLFKNLMAVLRD
IVITNDGTVRNTCSNSVIQFKYGVDSERGHQGLFEAGEPVGVLAATAMSN
PAYKAVLDSSPNSNSSWELMKEVLLCKVNFQNTTNDRRVILYLNECHCGK
RFCQENAACTVRNKLNKVSLKDTAVEFLVEYRKQGIDSCLHGHIHLNKTL
LQDWNISMQDIHQKCEDVINSLGQKKKKKATDDFKRTSLSVSECCSFRDP
CGSKGSDMPCLTFSYNATDPDLERTLDVLCNTVYPVLLEIVIKGDSRICS
ANIIWNSSDMTTWIRNRHASRRGEWVLDVTVEKSAVKQSGDAWRVVIDSC
LSVLHLIDTKRSIPYSVKQVQELLGLSCAFEQAVQRLSASVRMVSKGVLK
EHIILLANNMTCSGTMLGFNSGGYKALTRSLNIKAPFTEATLIAPRKCFE
KAAEKCHTDSLSTVVGSCSWGKRVDVGTGSQFELLWNQKET
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 chain8hyj Chain A 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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PDB8hyj A cryo-EM structure of KTF1-bound polymerase V transcription elongation complex.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		D451 D453
Binding residue
(residue number reindexed from 1)		D363 D365
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:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0030422 siRNA processing
GO:0035194 regulatory ncRNA-mediated post-transcriptional gene silencing
GO:0050832 defense response to fungus
Cellular Component
GO:0000418 RNA polymerase IV complex
GO:0000419 RNA polymerase V complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0016604 nuclear body
GO:0030880 RNA polymerase complex

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8hyj, PDBe:8hyj, PDBj:8hyj
PDBsum8hyj
PubMed37253723
UniProtQ5D869|NRPE1_ARATH DNA-directed RNA polymerase V subunit 1 (Gene Name=NRPE1)

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