9PIO

Cryo-EM structure of the ClpXP AAA+ protease bound to lambdaO-tagged Arc in a recognition complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0005524	molecular_function	ATP binding
A	0006457	biological_process	protein folding
A	0006508	biological_process	proteolysis
A	0008233	molecular_function	peptidase activity
A	0008270	molecular_function	zinc ion binding
A	0009376	cellular_component	HslUV protease complex
A	0016787	molecular_function	hydrolase activity
A	0016887	molecular_function	ATP hydrolysis activity
A	0046872	molecular_function	metal ion binding
A	0046983	molecular_function	protein dimerization activity
A	0051082	molecular_function	unfolded protein binding
A	0051301	biological_process	cell division
A	0051603	biological_process	proteolysis involved in protein catabolic process
B	0000166	molecular_function	nucleotide binding
B	0005524	molecular_function	ATP binding
B	0006457	biological_process	protein folding
B	0006508	biological_process	proteolysis
B	0008233	molecular_function	peptidase activity
B	0008270	molecular_function	zinc ion binding
B	0009376	cellular_component	HslUV protease complex
B	0016787	molecular_function	hydrolase activity
B	0016887	molecular_function	ATP hydrolysis activity
B	0046872	molecular_function	metal ion binding
B	0046983	molecular_function	protein dimerization activity
B	0051082	molecular_function	unfolded protein binding
B	0051301	biological_process	cell division
B	0051603	biological_process	proteolysis involved in protein catabolic process
C	0000166	molecular_function	nucleotide binding
C	0005524	molecular_function	ATP binding
C	0006457	biological_process	protein folding
C	0006508	biological_process	proteolysis
C	0008233	molecular_function	peptidase activity
C	0008270	molecular_function	zinc ion binding
C	0009376	cellular_component	HslUV protease complex
C	0016787	molecular_function	hydrolase activity
C	0016887	molecular_function	ATP hydrolysis activity
C	0046872	molecular_function	metal ion binding
C	0046983	molecular_function	protein dimerization activity
C	0051082	molecular_function	unfolded protein binding
C	0051301	biological_process	cell division
C	0051603	biological_process	proteolysis involved in protein catabolic process
D	0000166	molecular_function	nucleotide binding
D	0005524	molecular_function	ATP binding
D	0006457	biological_process	protein folding
D	0006508	biological_process	proteolysis
D	0008233	molecular_function	peptidase activity
D	0008270	molecular_function	zinc ion binding
D	0009376	cellular_component	HslUV protease complex
D	0016787	molecular_function	hydrolase activity
D	0016887	molecular_function	ATP hydrolysis activity
D	0046872	molecular_function	metal ion binding
D	0046983	molecular_function	protein dimerization activity
D	0051082	molecular_function	unfolded protein binding
D	0051301	biological_process	cell division
D	0051603	biological_process	proteolysis involved in protein catabolic process
E	0000166	molecular_function	nucleotide binding
E	0005524	molecular_function	ATP binding
E	0006457	biological_process	protein folding
E	0006508	biological_process	proteolysis
E	0008233	molecular_function	peptidase activity
E	0008270	molecular_function	zinc ion binding
E	0009376	cellular_component	HslUV protease complex
E	0016787	molecular_function	hydrolase activity
E	0016887	molecular_function	ATP hydrolysis activity
E	0046872	molecular_function	metal ion binding
E	0046983	molecular_function	protein dimerization activity
E	0051082	molecular_function	unfolded protein binding
E	0051301	biological_process	cell division
E	0051603	biological_process	proteolysis involved in protein catabolic process
F	0000166	molecular_function	nucleotide binding
F	0005524	molecular_function	ATP binding
F	0006457	biological_process	protein folding
F	0006508	biological_process	proteolysis
F	0008233	molecular_function	peptidase activity
F	0008270	molecular_function	zinc ion binding
F	0009376	cellular_component	HslUV protease complex
F	0016787	molecular_function	hydrolase activity
F	0016887	molecular_function	ATP hydrolysis activity
F	0046872	molecular_function	metal ion binding
F	0046983	molecular_function	protein dimerization activity
F	0051082	molecular_function	unfolded protein binding
F	0051301	biological_process	cell division
F	0051603	biological_process	proteolysis involved in protein catabolic process
G	0003677	molecular_function	DNA binding
G	0043565	molecular_function	sequence-specific DNA binding
H	0004176	molecular_function	ATP-dependent peptidase activity
H	0004252	molecular_function	serine-type endopeptidase activity
H	0005515	molecular_function	protein binding
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006508	biological_process	proteolysis
H	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
H	0008233	molecular_function	peptidase activity
H	0008236	molecular_function	serine-type peptidase activity
H	0009266	biological_process	response to temperature stimulus
H	0009314	biological_process	response to radiation
H	0009368	cellular_component	endopeptidase Clp complex
H	0009376	cellular_component	HslUV protease complex
H	0009408	biological_process	response to heat
H	0010498	biological_process	proteasomal protein catabolic process
H	0016020	cellular_component	membrane
H	0016787	molecular_function	hydrolase activity
H	0042802	molecular_function	identical protein binding
H	0043068	biological_process	positive regulation of programmed cell death
H	0051117	molecular_function	ATPase binding
I	0004176	molecular_function	ATP-dependent peptidase activity
I	0004252	molecular_function	serine-type endopeptidase activity
I	0005515	molecular_function	protein binding
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006508	biological_process	proteolysis
I	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
I	0008233	molecular_function	peptidase activity
I	0008236	molecular_function	serine-type peptidase activity
I	0009266	biological_process	response to temperature stimulus
I	0009314	biological_process	response to radiation
I	0009368	cellular_component	endopeptidase Clp complex
I	0009376	cellular_component	HslUV protease complex
I	0009408	biological_process	response to heat
I	0010498	biological_process	proteasomal protein catabolic process
I	0016020	cellular_component	membrane
I	0016787	molecular_function	hydrolase activity
I	0042802	molecular_function	identical protein binding
I	0043068	biological_process	positive regulation of programmed cell death
I	0051117	molecular_function	ATPase binding
J	0004176	molecular_function	ATP-dependent peptidase activity
J	0004252	molecular_function	serine-type endopeptidase activity
J	0005515	molecular_function	protein binding
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006508	biological_process	proteolysis
J	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
J	0008233	molecular_function	peptidase activity
J	0008236	molecular_function	serine-type peptidase activity
J	0009266	biological_process	response to temperature stimulus
J	0009314	biological_process	response to radiation
J	0009368	cellular_component	endopeptidase Clp complex
J	0009376	cellular_component	HslUV protease complex
J	0009408	biological_process	response to heat
J	0010498	biological_process	proteasomal protein catabolic process
J	0016020	cellular_component	membrane
J	0016787	molecular_function	hydrolase activity
J	0042802	molecular_function	identical protein binding
J	0043068	biological_process	positive regulation of programmed cell death
J	0051117	molecular_function	ATPase binding
K	0004176	molecular_function	ATP-dependent peptidase activity
K	0004252	molecular_function	serine-type endopeptidase activity
K	0005515	molecular_function	protein binding
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0006508	biological_process	proteolysis
K	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
K	0008233	molecular_function	peptidase activity
K	0008236	molecular_function	serine-type peptidase activity
K	0009266	biological_process	response to temperature stimulus
K	0009314	biological_process	response to radiation
K	0009368	cellular_component	endopeptidase Clp complex
K	0009376	cellular_component	HslUV protease complex
K	0009408	biological_process	response to heat
K	0010498	biological_process	proteasomal protein catabolic process
K	0016020	cellular_component	membrane
K	0016787	molecular_function	hydrolase activity
K	0042802	molecular_function	identical protein binding
K	0043068	biological_process	positive regulation of programmed cell death
K	0051117	molecular_function	ATPase binding
L	0004176	molecular_function	ATP-dependent peptidase activity
L	0004252	molecular_function	serine-type endopeptidase activity
L	0005515	molecular_function	protein binding
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006508	biological_process	proteolysis
L	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
L	0008233	molecular_function	peptidase activity
L	0008236	molecular_function	serine-type peptidase activity
L	0009266	biological_process	response to temperature stimulus
L	0009314	biological_process	response to radiation
L	0009368	cellular_component	endopeptidase Clp complex
L	0009376	cellular_component	HslUV protease complex
L	0009408	biological_process	response to heat
L	0010498	biological_process	proteasomal protein catabolic process
L	0016020	cellular_component	membrane
L	0016787	molecular_function	hydrolase activity
L	0042802	molecular_function	identical protein binding
L	0043068	biological_process	positive regulation of programmed cell death
L	0051117	molecular_function	ATPase binding
M	0004176	molecular_function	ATP-dependent peptidase activity
M	0004252	molecular_function	serine-type endopeptidase activity
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0006508	biological_process	proteolysis
M	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
M	0008233	molecular_function	peptidase activity
M	0008236	molecular_function	serine-type peptidase activity
M	0009266	biological_process	response to temperature stimulus
M	0009314	biological_process	response to radiation
M	0009368	cellular_component	endopeptidase Clp complex
M	0009376	cellular_component	HslUV protease complex
M	0009408	biological_process	response to heat
M	0010498	biological_process	proteasomal protein catabolic process
M	0016020	cellular_component	membrane
M	0016787	molecular_function	hydrolase activity
M	0042802	molecular_function	identical protein binding
M	0043068	biological_process	positive regulation of programmed cell death
M	0051117	molecular_function	ATPase binding
N	0004176	molecular_function	ATP-dependent peptidase activity
N	0004252	molecular_function	serine-type endopeptidase activity
N	0005515	molecular_function	protein binding
N	0005737	cellular_component	cytoplasm
N	0005829	cellular_component	cytosol
N	0006508	biological_process	proteolysis
N	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
N	0008233	molecular_function	peptidase activity
N	0008236	molecular_function	serine-type peptidase activity
N	0009266	biological_process	response to temperature stimulus
N	0009314	biological_process	response to radiation
N	0009368	cellular_component	endopeptidase Clp complex
N	0009376	cellular_component	HslUV protease complex
N	0009408	biological_process	response to heat
N	0010498	biological_process	proteasomal protein catabolic process
N	0016020	cellular_component	membrane
N	0016787	molecular_function	hydrolase activity
N	0042802	molecular_function	identical protein binding
N	0043068	biological_process	positive regulation of programmed cell death
N	0051117	molecular_function	ATPase binding
O	0004176	molecular_function	ATP-dependent peptidase activity
O	0004252	molecular_function	serine-type endopeptidase activity
O	0005515	molecular_function	protein binding
O	0005737	cellular_component	cytoplasm
O	0005829	cellular_component	cytosol
O	0006508	biological_process	proteolysis
O	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
O	0008233	molecular_function	peptidase activity
O	0008236	molecular_function	serine-type peptidase activity
O	0009266	biological_process	response to temperature stimulus
O	0009314	biological_process	response to radiation
O	0009368	cellular_component	endopeptidase Clp complex
O	0009376	cellular_component	HslUV protease complex
O	0009408	biological_process	response to heat
O	0010498	biological_process	proteasomal protein catabolic process
O	0016020	cellular_component	membrane
O	0016787	molecular_function	hydrolase activity
O	0042802	molecular_function	identical protein binding
O	0043068	biological_process	positive regulation of programmed cell death
O	0051117	molecular_function	ATPase binding
P	0004176	molecular_function	ATP-dependent peptidase activity
P	0004252	molecular_function	serine-type endopeptidase activity
P	0005515	molecular_function	protein binding
P	0005737	cellular_component	cytoplasm
P	0005829	cellular_component	cytosol
P	0006508	biological_process	proteolysis
P	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
P	0008233	molecular_function	peptidase activity
P	0008236	molecular_function	serine-type peptidase activity
P	0009266	biological_process	response to temperature stimulus
P	0009314	biological_process	response to radiation
P	0009368	cellular_component	endopeptidase Clp complex
P	0009376	cellular_component	HslUV protease complex
P	0009408	biological_process	response to heat
P	0010498	biological_process	proteasomal protein catabolic process
P	0016020	cellular_component	membrane
P	0016787	molecular_function	hydrolase activity
P	0042802	molecular_function	identical protein binding
P	0043068	biological_process	positive regulation of programmed cell death
P	0051117	molecular_function	ATPase binding
Q	0004176	molecular_function	ATP-dependent peptidase activity
Q	0004252	molecular_function	serine-type endopeptidase activity
Q	0005515	molecular_function	protein binding
Q	0005737	cellular_component	cytoplasm
Q	0005829	cellular_component	cytosol
Q	0006508	biological_process	proteolysis
Q	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
Q	0008233	molecular_function	peptidase activity
Q	0008236	molecular_function	serine-type peptidase activity
Q	0009266	biological_process	response to temperature stimulus
Q	0009314	biological_process	response to radiation
Q	0009368	cellular_component	endopeptidase Clp complex
Q	0009376	cellular_component	HslUV protease complex
Q	0009408	biological_process	response to heat
Q	0010498	biological_process	proteasomal protein catabolic process
Q	0016020	cellular_component	membrane
Q	0016787	molecular_function	hydrolase activity
Q	0042802	molecular_function	identical protein binding
Q	0043068	biological_process	positive regulation of programmed cell death
Q	0051117	molecular_function	ATPase binding
R	0004176	molecular_function	ATP-dependent peptidase activity
R	0004252	molecular_function	serine-type endopeptidase activity
R	0005515	molecular_function	protein binding
R	0005737	cellular_component	cytoplasm
R	0005829	cellular_component	cytosol
R	0006508	biological_process	proteolysis
R	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
R	0008233	molecular_function	peptidase activity
R	0008236	molecular_function	serine-type peptidase activity
R	0009266	biological_process	response to temperature stimulus
R	0009314	biological_process	response to radiation
R	0009368	cellular_component	endopeptidase Clp complex
R	0009376	cellular_component	HslUV protease complex
R	0009408	biological_process	response to heat
R	0010498	biological_process	proteasomal protein catabolic process
R	0016020	cellular_component	membrane
R	0016787	molecular_function	hydrolase activity
R	0042802	molecular_function	identical protein binding
R	0043068	biological_process	positive regulation of programmed cell death
R	0051117	molecular_function	ATPase binding
S	0004176	molecular_function	ATP-dependent peptidase activity
S	0004252	molecular_function	serine-type endopeptidase activity
S	0005515	molecular_function	protein binding
S	0005737	cellular_component	cytoplasm
S	0005829	cellular_component	cytosol
S	0006508	biological_process	proteolysis
S	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
S	0008233	molecular_function	peptidase activity
S	0008236	molecular_function	serine-type peptidase activity
S	0009266	biological_process	response to temperature stimulus
S	0009314	biological_process	response to radiation
S	0009368	cellular_component	endopeptidase Clp complex
S	0009376	cellular_component	HslUV protease complex
S	0009408	biological_process	response to heat
S	0010498	biological_process	proteasomal protein catabolic process
S	0016020	cellular_component	membrane
S	0016787	molecular_function	hydrolase activity
S	0042802	molecular_function	identical protein binding
S	0043068	biological_process	positive regulation of programmed cell death
S	0051117	molecular_function	ATPase binding
T	0004176	molecular_function	ATP-dependent peptidase activity
T	0004252	molecular_function	serine-type endopeptidase activity
T	0005515	molecular_function	protein binding
T	0005737	cellular_component	cytoplasm
T	0005829	cellular_component	cytosol
T	0006508	biological_process	proteolysis
T	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
T	0008233	molecular_function	peptidase activity
T	0008236	molecular_function	serine-type peptidase activity
T	0009266	biological_process	response to temperature stimulus
T	0009314	biological_process	response to radiation
T	0009368	cellular_component	endopeptidase Clp complex
T	0009376	cellular_component	HslUV protease complex
T	0009408	biological_process	response to heat
T	0010498	biological_process	proteasomal protein catabolic process
T	0016020	cellular_component	membrane
T	0016787	molecular_function	hydrolase activity
T	0042802	molecular_function	identical protein binding
T	0043068	biological_process	positive regulation of programmed cell death
T	0051117	molecular_function	ATPase binding
U	0004176	molecular_function	ATP-dependent peptidase activity
U	0004252	molecular_function	serine-type endopeptidase activity
U	0005515	molecular_function	protein binding
U	0005737	cellular_component	cytoplasm
U	0005829	cellular_component	cytosol
U	0006508	biological_process	proteolysis
U	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
U	0008233	molecular_function	peptidase activity
U	0008236	molecular_function	serine-type peptidase activity
U	0009266	biological_process	response to temperature stimulus
U	0009314	biological_process	response to radiation
U	0009368	cellular_component	endopeptidase Clp complex
U	0009376	cellular_component	HslUV protease complex
U	0009408	biological_process	response to heat
U	0010498	biological_process	proteasomal protein catabolic process
U	0016020	cellular_component	membrane
U	0016787	molecular_function	hydrolase activity
U	0042802	molecular_function	identical protein binding
U	0043068	biological_process	positive regulation of programmed cell death
U	0051117	molecular_function	ATPase binding

Functional Information from PROSITE/UniProt

site_id	PS00381
Number of Residues	12
Details	CLP_PROTEASE_SER Endopeptidase Clp serine active site. TicMGqAASMGA

Chain	Residue	Details
H	THR89-ALA100

---

site_id	PS00382
Number of Residues	14
Details	CLP_PROTEASE_HIS Endopeptidase Clp histidine active site. RfclPnsrVMIHQP

Chain	Residue	Details
H	ARG111-PRO124

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI2
Number of Residues	14
Details	Active site: {"description":"Nucleophile","evidences":[{"evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	28
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
H	GLY68	electrostatic stabiliser
H	SER97	covalent catalysis, proton shuttle (general acid/base)
H	MET98	electrostatic stabiliser
H	HIS122	proton shuttle (general acid/base)
H	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA10
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
Q	GLY68	electrostatic stabiliser
Q	SER97	covalent catalysis, proton shuttle (general acid/base)
Q	MET98	electrostatic stabiliser
Q	HIS122	proton shuttle (general acid/base)
Q	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA11
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
R	GLY68	electrostatic stabiliser
R	SER97	covalent catalysis, proton shuttle (general acid/base)
R	MET98	electrostatic stabiliser
R	HIS122	proton shuttle (general acid/base)
R	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA12
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
S	GLY68	electrostatic stabiliser
S	SER97	covalent catalysis, proton shuttle (general acid/base)
S	MET98	electrostatic stabiliser
S	HIS122	proton shuttle (general acid/base)
S	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA13
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
T	GLY68	electrostatic stabiliser
T	SER97	covalent catalysis, proton shuttle (general acid/base)
T	MET98	electrostatic stabiliser
T	HIS122	proton shuttle (general acid/base)
T	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA14
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
U	GLY68	electrostatic stabiliser
U	SER97	covalent catalysis, proton shuttle (general acid/base)
U	MET98	electrostatic stabiliser
U	HIS122	proton shuttle (general acid/base)
U	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA2
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
I	GLY68	electrostatic stabiliser
I	SER97	covalent catalysis, proton shuttle (general acid/base)
I	MET98	electrostatic stabiliser
I	HIS122	proton shuttle (general acid/base)
I	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA3
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
J	GLY68	electrostatic stabiliser
J	SER97	covalent catalysis, proton shuttle (general acid/base)
J	MET98	electrostatic stabiliser
J	HIS122	proton shuttle (general acid/base)
J	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA4
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
K	GLY68	electrostatic stabiliser
K	SER97	covalent catalysis, proton shuttle (general acid/base)
K	MET98	electrostatic stabiliser
K	HIS122	proton shuttle (general acid/base)
K	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA5
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
L	GLY68	electrostatic stabiliser
L	SER97	covalent catalysis, proton shuttle (general acid/base)
L	MET98	electrostatic stabiliser
L	HIS122	proton shuttle (general acid/base)
L	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA6
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
M	GLY68	electrostatic stabiliser
M	SER97	covalent catalysis, proton shuttle (general acid/base)
M	MET98	electrostatic stabiliser
M	HIS122	proton shuttle (general acid/base)
M	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA7
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
N	GLY68	electrostatic stabiliser
N	SER97	covalent catalysis, proton shuttle (general acid/base)
N	MET98	electrostatic stabiliser
N	HIS122	proton shuttle (general acid/base)
N	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA8
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
O	GLY68	electrostatic stabiliser
O	SER97	covalent catalysis, proton shuttle (general acid/base)
O	MET98	electrostatic stabiliser
O	HIS122	proton shuttle (general acid/base)
O	ASP171	electrostatic stabiliser, modifies pKa

---

site_id	MCSA9
Number of Residues	5
Details	M-CSA 912

Chain	Residue	Details
P	GLY68	electrostatic stabiliser
P	SER97	covalent catalysis, proton shuttle (general acid/base)
P	MET98	electrostatic stabiliser
P	HIS122	proton shuttle (general acid/base)
P	ASP171	electrostatic stabiliser, modifies pKa

---