Structure of PDB 4dm9 Chain B Binding Site BS01

Receptor Information
>4dm9 Chain B (length=223) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MQLKPMEINPEMLNKVLSRLGVAGQWRFVDVLGLEEESLGSVPAPACALL
LLFPLTAQHENFRKKQIEELKGQEVSPKVYFMKQTIGNSCGTIGLIHAVA
NNQDKLGFEDGSVLKQFLSETEKMSPEDRAKCFEKNEAIQAAHDAVAQEG
QCRVDDKVNFHFILFNNVDGHLYELDGRMPFPVNHGASSEDTLLKDAAKV
CREFTEREQGEVRFSAVALCKAA
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4dm9 The co-crystal structure of ubiquitin carboxy-terminal hydrolase L1 (UCHL1) with a tripeptide fluoromethyl ketone (Z-VAE(OMe)-FMK).
Resolution2.35 Å
Binding residue
(original residue number in PDB)		Q84 G87 N88 C90 R153 K157 N159 F160
Binding residue
(residue number reindexed from 1)		Q84 G87 N88 C90 R153 K157 N159 F160
Enzymatic activity
Catalytic site (original residue number in PDB) Q84 C90 H161 D176
Catalytic site (residue number reindexed from 1) Q84 C90 H161 D176
Enzyme Commision number 3.4.19.12: ubiquitinyl hydrolase 1.
Gene Ontology
Molecular Function
GO:0004197 cysteine-type endopeptidase activity
GO:0004843 cysteine-type deubiquitinase activity
GO:0005515 protein binding
GO:0008234 cysteine-type peptidase activity
GO:0008242 omega peptidase activity
GO:0031625 ubiquitin protein ligase binding
GO:0031694 alpha-2A adrenergic receptor binding
GO:0043022 ribosome binding
GO:0043130 ubiquitin binding
Biological Process
GO:0002176 male germ cell proliferation
GO:0002931 response to ischemia
GO:0006508 proteolysis
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0007409 axonogenesis
GO:0007412 axon target recognition
GO:0007628 adult walking behavior
GO:0016241 regulation of macroautophagy
GO:0016579 protein deubiquitination
GO:0019896 axonal transport of mitochondrion
GO:0042755 eating behavior
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0043407 negative regulation of MAP kinase activity
GO:0045821 positive regulation of glycolytic process
GO:0050905 neuromuscular process
GO:0055001 muscle cell development
GO:0071466 cellular response to xenobiotic stimulus
Cellular Component
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030424 axon
GO:0043025 neuronal cell body
GO:0044306 neuron projection terminus
GO:1904115 axon cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4dm9, PDBe:4dm9, PDBj:4dm9
PDBsum4dm9
PubMed22617491
UniProtP09936|UCHL1_HUMAN Ubiquitin carboxyl-terminal hydrolase isozyme L1 (Gene Name=UCHL1)

[Back to BioLiP]