4DM9

The Crystal Structure of Ubiquitin Carboxy-terminal hydrolase L1 (UCHL1) bound to a tripeptide fluoromethyl ketone Z-VAE(OMe)-FMK

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0002176	biological_process	male germ cell proliferation
A	0002931	biological_process	response to ischemia
A	0004197	molecular_function	cysteine-type endopeptidase activity
A	0004843	molecular_function	cysteine-type deubiquitinase activity
A	0005515	molecular_function	protein binding
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0005783	cellular_component	endoplasmic reticulum
A	0005789	cellular_component	endoplasmic reticulum membrane
A	0005829	cellular_component	cytosol
A	0005886	cellular_component	plasma membrane
A	0006508	biological_process	proteolysis
A	0006511	biological_process	ubiquitin-dependent protein catabolic process
A	0007409	biological_process	axonogenesis
A	0007412	biological_process	axon target recognition
A	0007628	biological_process	adult walking behavior
A	0008233	molecular_function	peptidase activity
A	0008234	molecular_function	cysteine-type peptidase activity
A	0008242	molecular_function	omega peptidase activity
A	0016020	cellular_component	membrane
A	0016241	biological_process	regulation of macroautophagy
A	0016579	biological_process	protein deubiquitination
A	0016787	molecular_function	hydrolase activity
A	0019896	biological_process	axonal transport of mitochondrion
A	0030163	biological_process	protein catabolic process
A	0030424	cellular_component	axon
A	0030547	molecular_function	signaling receptor inhibitor activity
A	0031625	molecular_function	ubiquitin protein ligase binding
A	0031694	molecular_function	alpha-2A adrenergic receptor binding
A	0042755	biological_process	eating behavior
A	0043022	molecular_function	ribosome binding
A	0043025	cellular_component	neuronal cell body
A	0043130	molecular_function	ubiquitin binding
A	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
A	0043409	biological_process	negative regulation of MAPK cascade
A	0044306	cellular_component	neuron projection terminus
A	0045821	biological_process	positive regulation of glycolytic process
A	0050905	biological_process	neuromuscular process
A	0055001	biological_process	muscle cell development
A	0071466	biological_process	cellular response to xenobiotic stimulus
A	1904115	cellular_component	axon cytoplasm
B	0002176	biological_process	male germ cell proliferation
B	0002931	biological_process	response to ischemia
B	0004197	molecular_function	cysteine-type endopeptidase activity
B	0004843	molecular_function	cysteine-type deubiquitinase activity
B	0005515	molecular_function	protein binding
B	0005654	cellular_component	nucleoplasm
B	0005737	cellular_component	cytoplasm
B	0005783	cellular_component	endoplasmic reticulum
B	0005789	cellular_component	endoplasmic reticulum membrane
B	0005829	cellular_component	cytosol
B	0005886	cellular_component	plasma membrane
B	0006508	biological_process	proteolysis
B	0006511	biological_process	ubiquitin-dependent protein catabolic process
B	0007409	biological_process	axonogenesis
B	0007412	biological_process	axon target recognition
B	0007628	biological_process	adult walking behavior
B	0008233	molecular_function	peptidase activity
B	0008234	molecular_function	cysteine-type peptidase activity
B	0008242	molecular_function	omega peptidase activity
B	0016020	cellular_component	membrane
B	0016241	biological_process	regulation of macroautophagy
B	0016579	biological_process	protein deubiquitination
B	0016787	molecular_function	hydrolase activity
B	0019896	biological_process	axonal transport of mitochondrion
B	0030163	biological_process	protein catabolic process
B	0030424	cellular_component	axon
B	0030547	molecular_function	signaling receptor inhibitor activity
B	0031625	molecular_function	ubiquitin protein ligase binding
B	0031694	molecular_function	alpha-2A adrenergic receptor binding
B	0042755	biological_process	eating behavior
B	0043022	molecular_function	ribosome binding
B	0043025	cellular_component	neuronal cell body
B	0043130	molecular_function	ubiquitin binding
B	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
B	0043409	biological_process	negative regulation of MAPK cascade
B	0044306	cellular_component	neuron projection terminus
B	0045821	biological_process	positive regulation of glycolytic process
B	0050905	biological_process	neuromuscular process
B	0055001	biological_process	muscle cell development
B	0071466	biological_process	cellular response to xenobiotic stimulus
B	1904115	cellular_component	axon cytoplasm

Functional Information from PDB Data

site_id	AC1
Number of Residues	18
Details	BINDING SITE FOR CHAIN X OF TRIPEPTIDE FLUOROMETHYL KETONE INHIBITOR Z-VAE(OME)-FMK

Chain	Residue
A	MET6
A	CYS90
A	ARG153
A	ASN159
A	PHE160
A	ARG178
A	PHE214
A	SER215
A	ALA216
X	HOH101
A	VAL31
A	LEU32
A	GLY33
A	LEU34
A	GLN84
A	GLY87
A	ASN88
A	SER89

---

site_id	AC2
Number of Residues	17
Details	BINDING SITE FOR CHAIN Y OF TRIPEPTIDE FLUOROMETHYL KETONE INHIBITOR Z-VAE(OME)-FMK

Chain	Residue
B	VAL31
B	LEU32
B	GLY33
B	LEU34
B	GLN84
B	GLY87
B	ASN88
B	SER89
B	CYS90
B	ARG153
B	LYS157
B	VAL158
B	ASN159
B	PHE160
B	ARG178
B	PHE214
Y	HOH101

---

Functional Information from PROSITE/UniProt

site_id	PS00140
Number of Residues	17
Details	UCH_1 Ubiquitin carboxyl-terminal hydrolase family 1 cysteine active-site. QtigNSCGtigLIHAVA

Chain	Residue	Details
A	GLN84-ALA100

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	Propeptide: {"description":"Removed in mature form","featureId":"PRO_0000414311","evidences":[{"evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	438
Details	Domain: {"description":"UCH catalytic","evidences":[{"source":"PROSITE-ProRule","id":"PRU01393","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	20
Details	Region: {"description":"Interaction with ubiquitin","evidences":[{"source":"PubMed","id":"20439756","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	Active site: {"description":"Nucleophile","evidences":[{"source":"PROSITE-ProRule","id":"PRU01393","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"20439756","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	2
Details	Active site: {"description":"Proton donor","evidences":[{"source":"PROSITE-ProRule","id":"PRU01393","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"20439756","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	12
Details	Site: {"description":"Susceptible to oxidation","evidences":[{"source":"PubMed","id":"14722078","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	Site: {"description":"Transition state stabilizer","evidences":[{"source":"PROSITE-ProRule","id":"PRU01393","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"8639624","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	2
Details	Site: {"description":"Important for enzyme activity","evidences":[{"source":"PROSITE-ProRule","id":"PRU01393","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	Modified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"37316325","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q00981","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	2
Details	Lipidation: {"description":"S-farnesyl cysteine","evidences":[{"source":"PubMed","id":"19261853","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---