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 | 0008236 | molecular_function | serine-type peptidase activity |
A | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
B | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
C | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
D | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
E | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
F | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
G | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
I | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
K | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
L | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
M | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
N | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
S | 0009368 | cellular_component | endopeptidase Clp complex |
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 | 0008236 | molecular_function | serine-type peptidase activity |
T | 0009368 | cellular_component | endopeptidase Clp complex |
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
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 14 |
Details | ACT_SITE: Nucleophile => ECO:0000255|HAMAP-Rule:MF_00444 |
Chain | Residue | Details |
A | SER98 | |
L | SER98 | |
M | SER98 | |
N | SER98 | |
S | SER98 | |
T | SER98 | |
B | SER98 | |
C | SER98 | |
D | SER98 | |
E | SER98 | |
F | SER98 | |
G | SER98 | |
I | SER98 | |
K | SER98 |
site_id | SWS_FT_FI2 |
Number of Residues | 14 |
Details | ACT_SITE: ACT_SITE => ECO:0000255|HAMAP-Rule:MF_00444 |
Chain | Residue | Details |
A | HIS123 | |
L | HIS123 | |
M | HIS123 | |
N | HIS123 | |
S | HIS123 | |
T | HIS123 | |
B | HIS123 | |
C | HIS123 | |
D | HIS123 | |
E | HIS123 | |
F | HIS123 | |
G | HIS123 | |
I | HIS123 | |
K | HIS123 |