Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6PMD

Structure of ClpP from Staphylococcus aureus in complex with Acyldepsipeptide

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004176	molecular_function	ATP-dependent peptidase activity
A	0004252	molecular_function	serine-type endopeptidase activity
A	0005737	cellular_component	cytoplasm
A	0006508	biological_process	proteolysis
A	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
A	0008233	molecular_function	peptidase activity
A	0008236	molecular_function	serine-type peptidase activity
A	0009368	cellular_component	endopeptidase Clp complex
A	0016787	molecular_function	hydrolase activity
A	0042802	molecular_function	identical protein binding
A	0051117	molecular_function	ATPase binding
B	0004176	molecular_function	ATP-dependent peptidase activity
B	0004252	molecular_function	serine-type endopeptidase activity
B	0005737	cellular_component	cytoplasm
B	0006508	biological_process	proteolysis
B	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
B	0008233	molecular_function	peptidase activity
B	0008236	molecular_function	serine-type peptidase activity
B	0009368	cellular_component	endopeptidase Clp complex
B	0016787	molecular_function	hydrolase activity
B	0042802	molecular_function	identical protein binding
B	0051117	molecular_function	ATPase binding
C	0004176	molecular_function	ATP-dependent peptidase activity
C	0004252	molecular_function	serine-type endopeptidase activity
C	0005737	cellular_component	cytoplasm
C	0006508	biological_process	proteolysis
C	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
C	0008233	molecular_function	peptidase activity
C	0008236	molecular_function	serine-type peptidase activity
C	0009368	cellular_component	endopeptidase Clp complex
C	0016787	molecular_function	hydrolase activity
C	0042802	molecular_function	identical protein binding
C	0051117	molecular_function	ATPase binding
D	0004176	molecular_function	ATP-dependent peptidase activity
D	0004252	molecular_function	serine-type endopeptidase activity
D	0005737	cellular_component	cytoplasm
D	0006508	biological_process	proteolysis
D	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
D	0008233	molecular_function	peptidase activity
D	0008236	molecular_function	serine-type peptidase activity
D	0009368	cellular_component	endopeptidase Clp complex
D	0016787	molecular_function	hydrolase activity
D	0042802	molecular_function	identical protein binding
D	0051117	molecular_function	ATPase binding
E	0004176	molecular_function	ATP-dependent peptidase activity
E	0004252	molecular_function	serine-type endopeptidase activity
E	0005737	cellular_component	cytoplasm
E	0006508	biological_process	proteolysis
E	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
E	0008233	molecular_function	peptidase activity
E	0008236	molecular_function	serine-type peptidase activity
E	0009368	cellular_component	endopeptidase Clp complex
E	0016787	molecular_function	hydrolase activity
E	0042802	molecular_function	identical protein binding
E	0051117	molecular_function	ATPase binding
F	0004176	molecular_function	ATP-dependent peptidase activity
F	0004252	molecular_function	serine-type endopeptidase activity
F	0005737	cellular_component	cytoplasm
F	0006508	biological_process	proteolysis
F	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
F	0008233	molecular_function	peptidase activity
F	0008236	molecular_function	serine-type peptidase activity
F	0009368	cellular_component	endopeptidase Clp complex
F	0016787	molecular_function	hydrolase activity
F	0042802	molecular_function	identical protein binding
F	0051117	molecular_function	ATPase binding
G	0004176	molecular_function	ATP-dependent peptidase activity
G	0004252	molecular_function	serine-type endopeptidase activity
G	0005737	cellular_component	cytoplasm
G	0006508	biological_process	proteolysis
G	0006515	biological_process	protein quality control for misfolded or incompletely synthesized proteins
G	0008233	molecular_function	peptidase activity
G	0008236	molecular_function	serine-type peptidase activity
G	0009368	cellular_component	endopeptidase Clp complex
G	0016787	molecular_function	hydrolase activity
G	0042802	molecular_function	identical protein binding
G	0051117	molecular_function	ATPase binding
I	0004176	molecular_function	ATP-dependent peptidase activity
I	0004252	molecular_function	serine-type endopeptidase activity
I	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
I	0016787	molecular_function	hydrolase activity
I	0042802	molecular_function	identical protein binding
I	0051117	molecular_function	ATPase binding
K	0004176	molecular_function	ATP-dependent peptidase activity
K	0004252	molecular_function	serine-type endopeptidase activity
K	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
K	0016787	molecular_function	hydrolase activity
K	0042802	molecular_function	identical protein binding
K	0051117	molecular_function	ATPase binding
L	0004176	molecular_function	ATP-dependent peptidase activity
L	0004252	molecular_function	serine-type endopeptidase activity
L	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
L	0016787	molecular_function	hydrolase activity
L	0042802	molecular_function	identical protein binding
L	0051117	molecular_function	ATPase binding
M	0004176	molecular_function	ATP-dependent peptidase activity
M	0004252	molecular_function	serine-type endopeptidase activity
M	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
M	0016787	molecular_function	hydrolase activity
M	0042802	molecular_function	identical protein binding
M	0051117	molecular_function	ATPase binding
N	0004176	molecular_function	ATP-dependent peptidase activity
N	0004252	molecular_function	serine-type endopeptidase activity
N	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
N	0016787	molecular_function	hydrolase activity
N	0042802	molecular_function	identical protein binding
N	0051117	molecular_function	ATPase binding
S	0004176	molecular_function	ATP-dependent peptidase activity
S	0004252	molecular_function	serine-type endopeptidase activity
S	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
S	0016787	molecular_function	hydrolase activity
S	0042802	molecular_function	identical protein binding
S	0051117	molecular_function	ATPase binding
T	0004176	molecular_function	ATP-dependent peptidase activity
T	0004252	molecular_function	serine-type endopeptidase activity
T	0005737	cellular_component	cytoplasm
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	0009368	cellular_component	endopeptidase Clp complex
T	0016787	molecular_function	hydrolase activity
T	0042802	molecular_function	identical protein binding
T	0051117	molecular_function	ATPase binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue MPD A 400

Chain	Residue
A	SER98
A	SER101
A	ILE122
A	HIS123

site_id	AC2
Number of Residues	5
Details	binding site for residue MPD B 400

Chain	Residue
B	SER98
B	SER101
B	ILE122
B	HIS123
B	LEU150

site_id	AC3
Number of Residues	5
Details	binding site for residue MPD C 400

Chain	Residue
C	VAL71
C	SER98
C	SER101
C	ILE122
C	HIS123

site_id	AC4
Number of Residues	4
Details	binding site for residue MPD D 400

Chain	Residue
D	SER98
D	SER101
D	ILE122
D	HIS123

site_id	AC5
Number of Residues	7
Details	binding site for residue MPD E 400

Chain	Residue
E	SER98
E	MET99
E	SER101
E	PHE102
E	ILE122
E	HIS123
E	LEU150

site_id	AC6
Number of Residues	5
Details	binding site for residue MPD F 400

Chain	Residue
F	SER98
F	SER101
F	ILE122
F	HIS123
F	LEU150

site_id	AC7
Number of Residues	6
Details	binding site for residue MPD G 400

Chain	Residue
G	SER98
G	SER101
G	PHE102
G	ILE122
G	HIS123
G	LEU150

site_id	AC8
Number of Residues	4
Details	binding site for residue MPD I 400

Chain	Residue
I	SER98
I	SER101
I	ILE122
I	HIS123

site_id	AC9
Number of Residues	4
Details	binding site for residue MPD K 400

Chain	Residue
K	SER98
K	SER101
K	ILE122
K	HIS123

site_id	AD1
Number of Residues	4
Details	binding site for residue MPD L 400

Chain	Residue
L	SER98
L	SER101
L	ILE122
L	HIS123

site_id	AD2
Number of Residues	6
Details	binding site for residue MPD M 400

Chain	Residue
M	SER98
M	MET99
M	SER101
M	ILE122
M	HIS123
M	LEU154

site_id	AD3
Number of Residues	5
Details	binding site for residue MPD N 400

Chain	Residue
N	SER98
N	SER101
N	ILE122
N	HIS123
N	LEU150

site_id	AD4
Number of Residues	6
Details	binding site for residue MPD S 400

Chain	Residue
S	SER98
S	MET99
S	SER101
S	ILE122
S	HIS123
S	LEU150

site_id	AD5
Number of Residues	4
Details	binding site for residue MPD T 400

Chain	Residue
T	SER98
T	SER101
T	ILE122
T	HIS123

site_id	AD6
Number of Residues	7
Details	binding site for Ligand residues MP8 H 7 through PRO H 4 bound to SER H 3

Chain	Residue
A	ASP27
A	TYR61
A	TYR63
A	GLN89
H	SHV1
H	WFP2
H	SER3

site_id	AD7
Number of Residues	8
Details	binding site for Ligand residues MP8 J 7 through PRO J 4 bound to SER J 3

Chain	Residue
B	ASP27
B	TYR61
B	TYR63
B	GLN89
B	ILE91
B	PHE113
J	WFP2
J	SER3

site_id	AD8
Number of Residues	8
Details	binding site for Ligand residues MP8 O 7 through PRO O 4 bound to SER O 3

Chain	Residue
C	ASP27
C	TYR61
C	TYR63
C	GLN89
C	ILE91
O	SHV1
O	WFP2
O	SER3

site_id	AD9
Number of Residues	8
Details	binding site for Ligand residues MP8 P 7 through PRO P 4 bound to SER P 3

Chain	Residue
P	SER3
D	ASP27
D	TYR61
D	TYR63
D	GLN89
D	ILE91
P	SHV1
P	WFP2

site_id	AE1
Number of Residues	7
Details	binding site for Ligand residues MP8 Q 7 through PRO Q 4 bound to SER Q 3

Chain	Residue
E	ASP27
E	TYR61
E	TYR63
E	GLN89
E	ILE91
Q	WFP2
Q	SER3

site_id	AE2
Number of Residues	7
Details	binding site for Ligand residues MP8 R 7 through PRO R 4 bound to SER R 3

Chain	Residue
F	ASP27
F	TYR61
F	TYR63
F	GLN89
F	ILE91
R	WFP2
R	SER3

site_id	AE3
Number of Residues	8
Details	binding site for Ligand residues MP8 U 7 through PRO U 4 bound to SER U 3

Chain	Residue
K	ASP27
K	TYR61
K	TYR63
K	GLN89
K	PHE113
U	SHV1
U	WFP2
U	SER3

site_id	AE4
Number of Residues	7
Details	binding site for Ligand residues MP8 V 7 through PRO V 4 bound to SER V 3

Chain	Residue
L	ASP27
L	TYR61
L	TYR63
L	GLN89
V	SHV1
V	WFP2
V	SER3

site_id	AE5
Number of Residues	8
Details	binding site for Ligand residues MP8 X 7 through PRO X 4 bound to SER X 3

Chain	Residue
M	ASP27
M	TYR61
M	TYR63
M	GLN89
M	ILE91
X	SHV1
X	WFP2
X	SER3

site_id	AE6
Number of Residues	8
Details	binding site for Ligand residues MP8 Y 7 through PRO Y 4 bound to SER Y 3

Chain	Residue
S	ASP27
S	TYR61
S	TYR63
S	GLN89
S	ILE91
S	PHE113
Y	WFP2
Y	SER3

site_id	AE7
Number of Residues	7
Details	binding site for Ligand residues MP8 Z 7 through PRO Z 4 bound to SER Z 3

Chain	Residue
T	ASP27
T	TYR61
T	TYR63
T	GLN89
T	ILE91
Z	WFP2
Z	SER3

site_id	AE8
Number of Residues	15
Details	binding site for residues SHV H 1 and WFP H 2

Chain	Residue
A	ARG23
A	ASP27
A	ILE29
A	TYR63
A	MET190
B	VAL45
B	LEU49
B	ALA53
B	THR80
B	HIS83
H	SER3
H	PRO4
H	YCP5
H	ALA6
H	MP87

site_id	AE9
Number of Residues	11
Details	binding site for Di-peptide WFP H 2 and SER H 3

Chain	Residue
A	TYR63
A	MET190
B	VAL45
B	LEU49
B	THR80
B	HIS83
H	SHV1
H	PRO4
H	YCP5
H	ALA6
H	MP87

site_id	AF1
Number of Residues	13
Details	binding site for residues SHV J 1 and WFP J 2

Chain	Residue
B	ARG23
B	ASP27
B	ILE29
B	TYR63
B	ILE93
C	LEU49
C	GLN52
C	ALA53
C	THR80
C	HIS83
C	HOH523
J	SER3
J	ALA6

site_id	AF2
Number of Residues	10
Details	binding site for Di-peptide WFP J 2 and SER J 3

Chain	Residue
B	TYR63
B	ILE93
C	LEU49
C	THR80
C	HIS83
C	HOH524
J	SHV1
J	PRO4
J	ALA6
J	MP87

site_id	AF3
Number of Residues	15
Details	binding site for residues SHV O 1 and WFP O 2

Chain	Residue
C	ARG23
C	ASP27
C	ILE29
C	TYR63
C	ILE91
D	LEU49
D	GLN52
D	ALA53
D	THR80
D	HIS83
D	HOH514
O	SER3
O	PRO4
O	ALA6
O	MP87

site_id	AF4
Number of Residues	9
Details	binding site for Di-peptide WFP O 2 and SER O 3

Chain	Residue
C	TYR63
C	ILE91
D	LEU49
D	THR80
D	HIS83
O	SHV1
O	PRO4
O	ALA6
O	MP87

site_id	AF5
Number of Residues	17
Details	binding site for residues SHV P 1 and WFP P 2

Chain	Residue
D	ARG23
D	LEU24
D	ASP27
D	ILE29
D	TYR63
D	ILE93
D	LEU115
E	VAL45
E	LEU49
E	GLN52
E	ALA53
E	THR80
E	HIS83
E	HOH511
P	SER3
P	ALA6
P	MP87

site_id	AF6
Number of Residues	11
Details	binding site for Di-peptide WFP P 2 and SER P 3

Chain	Residue
D	TYR63
D	ILE93
D	LEU115
E	VAL45
E	LEU49
E	THR80
E	HIS83
P	SHV1
P	PRO4
P	ALA6
P	MP87

site_id	AF7
Number of Residues	16
Details	binding site for residues SHV Q 1 and WFP Q 2

Chain	Residue
E	ARG23
E	ASP27
E	ILE29
E	TYR63
E	LEU115
F	VAL45
F	LEU49
F	GLN52
F	ALA53
F	THR80
F	HIS83
Q	SER3
Q	PRO4
Q	YCP5
Q	ALA6
Q	HOH101

site_id	AF8
Number of Residues	11
Details	binding site for Di-peptide WFP Q 2 and SER Q 3

Chain	Residue
E	TYR63
E	LEU115
F	VAL45
F	LEU49
F	THR80
F	HIS83
Q	SHV1
Q	PRO4
Q	YCP5
Q	ALA6
Q	MP87

site_id	AF9
Number of Residues	14
Details	binding site for residues SHV R 1 and WFP R 2

Chain	Residue
F	ARG23
F	ASP27
F	ILE29
F	TYR63
F	ILE93
G	LEU49
G	GLN52
G	THR80
G	HIS83
R	SER3
R	PRO4
R	YCP5
R	ALA6
R	HOH101

site_id	AG1
Number of Residues	10
Details	binding site for Di-peptide WFP R 2 and SER R 3

Chain	Residue
F	TYR63
F	ILE93
G	LEU49
G	THR80
G	HIS83
R	SHV1
R	PRO4
R	YCP5
R	ALA6
R	MP87

site_id	AG2
Number of Residues	13
Details	binding site for residues SHV U 1 and WFP U 2

Chain	Residue
K	ASP27
K	ILE29
K	TYR63
K	ILE93
L	GLN52
L	ALA53
L	THR80
L	HIS83
U	SER3
U	PRO4
U	YCP5
U	ALA6
U	MP87

site_id	AG3
Number of Residues	9
Details	binding site for Di-peptide WFP U 2 and SER U 3

Chain	Residue
K	TYR63
K	ILE93
L	THR80
L	HIS83
U	SHV1
U	PRO4
U	YCP5
U	ALA6
U	MP87

site_id	AG4
Number of Residues	14
Details	binding site for residues SHV V 1 and WFP V 2

Chain	Residue
L	ARG23
L	LEU24
L	ASP27
L	ILE29
L	TYR63
M	LEU49
M	GLN52
M	THR80
M	HIS83
M	HOH503
V	SER3
V	PRO4
V	ALA6
V	MP87

site_id	AG5
Number of Residues	8
Details	binding site for Di-peptide WFP V 2 and SER V 3

Chain	Residue
L	TYR63
M	LEU49
M	THR80
M	HIS83
V	SHV1
V	PRO4
V	ALA6
V	MP87

site_id	AG6
Number of Residues	15
Details	binding site for residues SHV X 1 and WFP X 2

Chain	Residue
M	LEU24
M	ASP27
M	ILE29
M	TYR63
M	LEU115
N	LEU49
N	PHE50
N	GLN52
N	THR80
N	HIS83
X	SER3
X	YCP5
X	ALA6
X	MP87
X	HOH101

site_id	AG7
Number of Residues	10
Details	binding site for Di-peptide WFP X 2 and SER X 3

Chain	Residue
M	TYR63
M	LEU115
N	LEU49
N	THR80
N	HIS83
X	SHV1
X	PRO4
X	YCP5
X	ALA6
X	MP87

site_id	AG8
Number of Residues	13
Details	binding site for residues SHV Y 1 and WFP Y 2

Chain	Residue
S	LEU24
S	ASP27
S	ILE29
S	TYR63
S	MET190
T	LEU49
T	GLN52
T	THR80
T	HIS83
Y	SER3
Y	PRO4
Y	YCP5
Y	ALA6

site_id	AG9
Number of Residues	10
Details	binding site for Di-peptide WFP Y 2 and SER Y 3

Chain	Residue
S	TYR63
S	MET190
T	LEU49
T	THR80
T	HIS83
Y	SHV1
Y	PRO4
Y	YCP5
Y	ALA6
Y	MP87

site_id	AH1
Number of Residues	13
Details	binding site for residues SHV Z 1 and WFP Z 2

Chain	Residue
I	LEU49
I	GLN52
I	ALA53
I	THR80
I	HIS83
T	ARG23
T	LEU24
T	ASP27
T	ILE29
T	TYR63
Z	SER3
Z	ALA6
Z	HOH101

site_id	AH2
Number of Residues	8
Details	binding site for Di-peptide WFP Z 2 and SER Z 3

Chain	Residue
I	LEU49
I	THR80
I	HIS83
T	TYR63
Z	SHV1
Z	PRO4
Z	ALA6
Z	MP87

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
A	THR90-SER101

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

Chain	Residue	Details
A	ARG112-PRO125

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	14
Details	Active site: {"description":"Nucleophile","evidences":[{"source":"HAMAP-Rule","id":"MF_00444","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	14
Details	Active site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00444","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)