Structure of PDB 8wh9 Chain K

Receptor sequence
>8wh9K (length=452) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
KSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIGFLSHLKGNGLDGP
YLVIAPLSTLSNWFNEIARFTPSINAIIYHGDKNQRDELRRKHMPKTVGP
KFPIVITSYEVAMNDAKRILRHYPWKYVVIDEGHRLKNHKCKLLRELKHL
KMDNKLLLTGTPLQNNLSELWSLLNFILPDIFTSHDEFESQVVSKLHGIL
RPFILRRMKCDVELSLPRKKEIIMYATMTDHQKKFQEHLVNNTLEAHLGE
NAIRGQGWKGKLNNLVIQLRKNCNHPDLLQGQIDGSYLYPPVEEIVGQCG
KFRLLERLLVRLFANNHKVLIFSQWTKLLDIMDYYFSEKGFEVCRIDGSV
KLDERRRQIKDFSDEKSSCSIFLLSTRAGGLGINLTAADTCILYDSDWNP
QMDLQAMDRCHRIGQTKPVHVYRLSTAQSIETRVLKRAYSKLKLEHVVIG
QG
3D structure
PDB8wh9 Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation.
ChainK
Resolution3.31 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number 3.6.4.12: DNA helicase.
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 dna K C343 K344 L345 H351 R601 W622 C141 K142 L143 H149 R377 W398
BS02 dna K D284 E312 N487 W549 G572 A602 D82 E110 N263 W325 G348 A378
BS03 ADP K Q206 L231 G232 K233 T234 I235 R271 R636 I637 Q4 L29 G30 K31 T32 I33 R69 R412 I413
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003678 DNA helicase activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0140658 ATP-dependent chromatin remodeler activity
Biological Process
GO:0006338 chromatin remodeling
GO:0006346 DNA methylation-dependent heterochromatin formation
GO:0009294 DNA-mediated transformation
GO:0031507 heterochromatin formation
GO:0032197 retrotransposition
GO:0032508 DNA duplex unwinding
GO:0040029 epigenetic regulation of gene expression
Cellular Component
GO:0000786 nucleosome
GO:0005634 nucleus

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8wh9, PDBe:8wh9, PDBj:8wh9
PDBsum8wh9
PubMed38413824
UniProtQ9XFH4|DDM1_ARATH ATP-dependent DNA helicase DDM1 (Gene Name=DDM1)

[Back to BioLiP]