Structure of PDB 8v87 Chain D

Receptor sequence
>8v87D (length=432) Species: 1247190 (Saccharomyces cerevisiae BY4741) [Search protein sequence]
EKFEELKLSQPTLKAIEKMGFTTMTSVQARTIPPLLAGRDVLGAAKTGSG
KTLAFLIPAIELLHSLKFKPRNGTGIIVITPTRELALQIFGVARELMEFH
SQTFGIVIGGANRRQEAEKLMKGVNMLIATPGRLLDHLQNTKGFVFKNLK
ALIIDEADRILEIGFEDEMRQIIKILPNEDRQSMLFSATQTTKVEDLARI
SLRPGPLFINVLEQGYVVCDSDKRFLLLFSFLKRNQKKKIIVFLSSCNSV
KYYAELLNYIDLPVLELHGKQKQQKRTNTFFEFCNAERGILICTDVAARG
LDIPAVDWIIQFDPPDDPRDYIHRVGRTAKGKSLMFLTPNELGFLRYLKA
SKVPLNEYEFPENKIANVQSQLEKLIKSNYYLHQTAKDGYRSYLQAYASH
SLKTVYQIDKLDLAKVAKSYGFPVPPKVNITI
3D structure
PDB8v87 The DEAD-box ATPase Dbp10/DDX54 initiates peptidyl transferase center formation during 60S ribosome biogenesis.
ChainD
Resolution2.66 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 3.6.4.13: RNA 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 rna D N153 R155 Q156 E159 R448 N112 R114 Q115 E118 R391
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003724 RNA helicase activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008186 ATP-dependent activity, acting on RNA
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0042802 identical protein binding
Biological Process
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006364 rRNA processing
GO:0006396 RNA processing
GO:0030490 maturation of SSU-rRNA
GO:0042254 ribosome biogenesis
GO:0042273 ribosomal large subunit biogenesis
GO:0042274 ribosomal small subunit biogenesis
GO:1990417 snoRNA release from pre-rRNA
Cellular Component
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005730 nucleolus
GO:0030686 90S preribosome
GO:0030687 preribosome, large subunit precursor
GO:0032040 small-subunit processome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8v87, PDBe:8v87, PDBj:8v87
PDBsum8v87
PubMed38632236
UniProtQ03532|HAS1_YEAST ATP-dependent RNA helicase HAS1 (Gene Name=HAS1)

[Back to BioLiP]