Structure of PDB 8qfd Chain m

Receptor sequence

>8qfdm (length=52) Species: 9606 (Homo sapiens) [Search protein sequence]

IIEPSLRQLAQKYNCDKMICRKCYARLHPRAVNCRKKKCGHTNNLRPKKK
VK

3D structure

PDB

8qfd The UFM1 E3 ligase recognizes and releases 60S ribosomes from ER translocons

Chain

Resolution

2.2 Å

3D
structure

Enzymatic activity

Enzyme Commision number

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	R97 Y100 R102 H104 R106 N109 R111 K112 K113 K114 G116 H117 N119 R122 K124 K125	R21 Y24 R26 H28 R30 N33 R35 K36 K37 K38 G40 H41 N43 R46 K48 K49
BS02	ZN	m	C96 C99 C110 C115	C20 C23 C34 C39

Gene Ontology

	Molecular Function
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0031386	protein tag activity
GO:0031625	ubiquitin protein ligase binding

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation
GO:0016567	protein ubiquitination
GO:0019941	modification-dependent protein catabolic process
GO:0036211	protein modification process

	Cellular Component
GO:0005615	extracellular space
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005737	cytoplasm
GO:0005741	mitochondrial outer membrane
GO:0005765	lysosomal membrane
GO:0005783	endoplasmic reticulum
GO:0005789	endoplasmic reticulum membrane
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005886	plasma membrane
GO:0010008	endosome membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0022627	cytosolic small ribosomal subunit
GO:0030666	endocytic vesicle membrane
GO:0031982	vesicle
GO:0045202	synapse
GO:0070062	extracellular exosome
GO:1990904	ribonucleoprotein complex

External links

PDB	RCSB:8qfd, PDBe:8qfd, PDBj:8qfd
PDBsum	8qfd
PubMed	38383789
UniProt	P62987\|RL40_HUMAN Ubiquitin-ribosomal protein eL40 fusion protein (Gene Name=UBA52)