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6PMD

Structure of ClpP from Staphylococcus aureus in complex with Acyldepsipeptide

Functional Information from GO Data
ChainGOidnamespacecontents
A0004176molecular_functionATP-dependent peptidase activity
A0004252molecular_functionserine-type endopeptidase activity
A0005737cellular_componentcytoplasm
A0006508biological_processproteolysis
A0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
A0008236molecular_functionserine-type peptidase activity
A0009368cellular_componentendopeptidase Clp complex
A0051117molecular_functionATPase binding
B0004176molecular_functionATP-dependent peptidase activity
B0004252molecular_functionserine-type endopeptidase activity
B0005737cellular_componentcytoplasm
B0006508biological_processproteolysis
B0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
B0008236molecular_functionserine-type peptidase activity
B0009368cellular_componentendopeptidase Clp complex
B0051117molecular_functionATPase binding
C0004176molecular_functionATP-dependent peptidase activity
C0004252molecular_functionserine-type endopeptidase activity
C0005737cellular_componentcytoplasm
C0006508biological_processproteolysis
C0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
C0008236molecular_functionserine-type peptidase activity
C0009368cellular_componentendopeptidase Clp complex
C0051117molecular_functionATPase binding
D0004176molecular_functionATP-dependent peptidase activity
D0004252molecular_functionserine-type endopeptidase activity
D0005737cellular_componentcytoplasm
D0006508biological_processproteolysis
D0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
D0008236molecular_functionserine-type peptidase activity
D0009368cellular_componentendopeptidase Clp complex
D0051117molecular_functionATPase binding
E0004176molecular_functionATP-dependent peptidase activity
E0004252molecular_functionserine-type endopeptidase activity
E0005737cellular_componentcytoplasm
E0006508biological_processproteolysis
E0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
E0008236molecular_functionserine-type peptidase activity
E0009368cellular_componentendopeptidase Clp complex
E0051117molecular_functionATPase binding
F0004176molecular_functionATP-dependent peptidase activity
F0004252molecular_functionserine-type endopeptidase activity
F0005737cellular_componentcytoplasm
F0006508biological_processproteolysis
F0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
F0008236molecular_functionserine-type peptidase activity
F0009368cellular_componentendopeptidase Clp complex
F0051117molecular_functionATPase binding
G0004176molecular_functionATP-dependent peptidase activity
G0004252molecular_functionserine-type endopeptidase activity
G0005737cellular_componentcytoplasm
G0006508biological_processproteolysis
G0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
G0008236molecular_functionserine-type peptidase activity
G0009368cellular_componentendopeptidase Clp complex
G0051117molecular_functionATPase binding
I0004176molecular_functionATP-dependent peptidase activity
I0004252molecular_functionserine-type endopeptidase activity
I0005737cellular_componentcytoplasm
I0006508biological_processproteolysis
I0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
I0008236molecular_functionserine-type peptidase activity
I0009368cellular_componentendopeptidase Clp complex
I0051117molecular_functionATPase binding
K0004176molecular_functionATP-dependent peptidase activity
K0004252molecular_functionserine-type endopeptidase activity
K0005737cellular_componentcytoplasm
K0006508biological_processproteolysis
K0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
K0008236molecular_functionserine-type peptidase activity
K0009368cellular_componentendopeptidase Clp complex
K0051117molecular_functionATPase binding
L0004176molecular_functionATP-dependent peptidase activity
L0004252molecular_functionserine-type endopeptidase activity
L0005737cellular_componentcytoplasm
L0006508biological_processproteolysis
L0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
L0008236molecular_functionserine-type peptidase activity
L0009368cellular_componentendopeptidase Clp complex
L0051117molecular_functionATPase binding
M0004176molecular_functionATP-dependent peptidase activity
M0004252molecular_functionserine-type endopeptidase activity
M0005737cellular_componentcytoplasm
M0006508biological_processproteolysis
M0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
M0008236molecular_functionserine-type peptidase activity
M0009368cellular_componentendopeptidase Clp complex
M0051117molecular_functionATPase binding
N0004176molecular_functionATP-dependent peptidase activity
N0004252molecular_functionserine-type endopeptidase activity
N0005737cellular_componentcytoplasm
N0006508biological_processproteolysis
N0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
N0008236molecular_functionserine-type peptidase activity
N0009368cellular_componentendopeptidase Clp complex
N0051117molecular_functionATPase binding
S0004176molecular_functionATP-dependent peptidase activity
S0004252molecular_functionserine-type endopeptidase activity
S0005737cellular_componentcytoplasm
S0006508biological_processproteolysis
S0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
S0008236molecular_functionserine-type peptidase activity
S0009368cellular_componentendopeptidase Clp complex
S0051117molecular_functionATPase binding
T0004176molecular_functionATP-dependent peptidase activity
T0004252molecular_functionserine-type endopeptidase activity
T0005737cellular_componentcytoplasm
T0006508biological_processproteolysis
T0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
T0008236molecular_functionserine-type peptidase activity
T0009368cellular_componentendopeptidase Clp complex
T0051117molecular_functionATPase binding
Functional Information from PDB Data
site_idAC1
Number of Residues4
Detailsbinding site for residue MPD A 400
ChainResidue
ASER98
ASER101
AILE122
AHIS123

site_idAC2
Number of Residues5
Detailsbinding site for residue MPD B 400
ChainResidue
BSER98
BSER101
BILE122
BHIS123
BLEU150

site_idAC3
Number of Residues5
Detailsbinding site for residue MPD C 400
ChainResidue
CVAL71
CSER98
CSER101
CILE122
CHIS123

site_idAC4
Number of Residues4
Detailsbinding site for residue MPD D 400
ChainResidue
DSER98
DSER101
DILE122
DHIS123

site_idAC5
Number of Residues7
Detailsbinding site for residue MPD E 400
ChainResidue
ESER98
EMET99
ESER101
EPHE102
EILE122
EHIS123
ELEU150

site_idAC6
Number of Residues5
Detailsbinding site for residue MPD F 400
ChainResidue
FSER98
FSER101
FILE122
FHIS123
FLEU150

site_idAC7
Number of Residues6
Detailsbinding site for residue MPD G 400
ChainResidue
GSER98
GSER101
GPHE102
GILE122
GHIS123
GLEU150

site_idAC8
Number of Residues4
Detailsbinding site for residue MPD I 400
ChainResidue
ISER98
ISER101
IILE122
IHIS123

site_idAC9
Number of Residues4
Detailsbinding site for residue MPD K 400
ChainResidue
KSER98
KSER101
KILE122
KHIS123

site_idAD1
Number of Residues4
Detailsbinding site for residue MPD L 400
ChainResidue
LSER98
LSER101
LILE122
LHIS123

site_idAD2
Number of Residues6
Detailsbinding site for residue MPD M 400
ChainResidue
MSER98
MMET99
MSER101
MILE122
MHIS123
MLEU154

site_idAD3
Number of Residues5
Detailsbinding site for residue MPD N 400
ChainResidue
NSER98
NSER101
NILE122
NHIS123
NLEU150

site_idAD4
Number of Residues6
Detailsbinding site for residue MPD S 400
ChainResidue
SSER98
SMET99
SSER101
SILE122
SHIS123
SLEU150

site_idAD5
Number of Residues4
Detailsbinding site for residue MPD T 400
ChainResidue
TSER98
TSER101
TILE122
THIS123

site_idAD6
Number of Residues7
Detailsbinding site for Ligand residues MP8 H 7 through PRO H 4 bound to SER H 3
ChainResidue
AASP27
ATYR61
ATYR63
AGLN89
HSHV1
HWFP2
HSER3

site_idAD7
Number of Residues8
Detailsbinding site for Ligand residues MP8 J 7 through PRO J 4 bound to SER J 3
ChainResidue
BASP27
BTYR61
BTYR63
BGLN89
BILE91
BPHE113
JWFP2
JSER3

site_idAD8
Number of Residues8
Detailsbinding site for Ligand residues MP8 O 7 through PRO O 4 bound to SER O 3
ChainResidue
CASP27
CTYR61
CTYR63
CGLN89
CILE91
OSHV1
OWFP2
OSER3

site_idAD9
Number of Residues8
Detailsbinding site for Ligand residues MP8 P 7 through PRO P 4 bound to SER P 3
ChainResidue
PSER3
DASP27
DTYR61
DTYR63
DGLN89
DILE91
PSHV1
PWFP2

site_idAE1
Number of Residues7
Detailsbinding site for Ligand residues MP8 Q 7 through PRO Q 4 bound to SER Q 3
ChainResidue
EASP27
ETYR61
ETYR63
EGLN89
EILE91
QWFP2
QSER3

site_idAE2
Number of Residues7
Detailsbinding site for Ligand residues MP8 R 7 through PRO R 4 bound to SER R 3
ChainResidue
FASP27
FTYR61
FTYR63
FGLN89
FILE91
RWFP2
RSER3

site_idAE3
Number of Residues8
Detailsbinding site for Ligand residues MP8 U 7 through PRO U 4 bound to SER U 3
ChainResidue
KASP27
KTYR61
KTYR63
KGLN89
KPHE113
USHV1
UWFP2
USER3

site_idAE4
Number of Residues7
Detailsbinding site for Ligand residues MP8 V 7 through PRO V 4 bound to SER V 3
ChainResidue
LASP27
LTYR61
LTYR63
LGLN89
VSHV1
VWFP2
VSER3

site_idAE5
Number of Residues8
Detailsbinding site for Ligand residues MP8 X 7 through PRO X 4 bound to SER X 3
ChainResidue
MASP27
MTYR61
MTYR63
MGLN89
MILE91
XSHV1
XWFP2
XSER3

site_idAE6
Number of Residues8
Detailsbinding site for Ligand residues MP8 Y 7 through PRO Y 4 bound to SER Y 3
ChainResidue
SASP27
STYR61
STYR63
SGLN89
SILE91
SPHE113
YWFP2
YSER3

site_idAE7
Number of Residues7
Detailsbinding site for Ligand residues MP8 Z 7 through PRO Z 4 bound to SER Z 3
ChainResidue
TASP27
TTYR61
TTYR63
TGLN89
TILE91
ZWFP2
ZSER3

site_idAE8
Number of Residues15
Detailsbinding site for residues SHV H 1 and WFP H 2
ChainResidue
AARG23
AASP27
AILE29
ATYR63
AMET190
BVAL45
BLEU49
BALA53
BTHR80
BHIS83
HSER3
HPRO4
HYCP5
HALA6
HMP87

site_idAE9
Number of Residues11
Detailsbinding site for Di-peptide WFP H 2 and SER H 3
ChainResidue
ATYR63
AMET190
BVAL45
BLEU49
BTHR80
BHIS83
HSHV1
HPRO4
HYCP5
HALA6
HMP87

site_idAF1
Number of Residues13
Detailsbinding site for residues SHV J 1 and WFP J 2
ChainResidue
BARG23
BASP27
BILE29
BTYR63
BILE93
CLEU49
CGLN52
CALA53
CTHR80
CHIS83
CHOH523
JSER3
JALA6

site_idAF2
Number of Residues10
Detailsbinding site for Di-peptide WFP J 2 and SER J 3
ChainResidue
BTYR63
BILE93
CLEU49
CTHR80
CHIS83
CHOH524
JSHV1
JPRO4
JALA6
JMP87

site_idAF3
Number of Residues15
Detailsbinding site for residues SHV O 1 and WFP O 2
ChainResidue
CARG23
CASP27
CILE29
CTYR63
CILE91
DLEU49
DGLN52
DALA53
DTHR80
DHIS83
DHOH514
OSER3
OPRO4
OALA6
OMP87

site_idAF4
Number of Residues9
Detailsbinding site for Di-peptide WFP O 2 and SER O 3
ChainResidue
CTYR63
CILE91
DLEU49
DTHR80
DHIS83
OSHV1
OPRO4
OALA6
OMP87

site_idAF5
Number of Residues17
Detailsbinding site for residues SHV P 1 and WFP P 2
ChainResidue
DARG23
DLEU24
DASP27
DILE29
DTYR63
DILE93
DLEU115
EVAL45
ELEU49
EGLN52
EALA53
ETHR80
EHIS83
EHOH511
PSER3
PALA6
PMP87

site_idAF6
Number of Residues11
Detailsbinding site for Di-peptide WFP P 2 and SER P 3
ChainResidue
DTYR63
DILE93
DLEU115
EVAL45
ELEU49
ETHR80
EHIS83
PSHV1
PPRO4
PALA6
PMP87

site_idAF7
Number of Residues16
Detailsbinding site for residues SHV Q 1 and WFP Q 2
ChainResidue
EARG23
EASP27
EILE29
ETYR63
ELEU115
FVAL45
FLEU49
FGLN52
FALA53
FTHR80
FHIS83
QSER3
QPRO4
QYCP5
QALA6
QHOH101

site_idAF8
Number of Residues11
Detailsbinding site for Di-peptide WFP Q 2 and SER Q 3
ChainResidue
ETYR63
ELEU115
FVAL45
FLEU49
FTHR80
FHIS83
QSHV1
QPRO4
QYCP5
QALA6
QMP87

site_idAF9
Number of Residues14
Detailsbinding site for residues SHV R 1 and WFP R 2
ChainResidue
FARG23
FASP27
FILE29
FTYR63
FILE93
GLEU49
GGLN52
GTHR80
GHIS83
RSER3
RPRO4
RYCP5
RALA6
RHOH101

site_idAG1
Number of Residues10
Detailsbinding site for Di-peptide WFP R 2 and SER R 3
ChainResidue
FTYR63
FILE93
GLEU49
GTHR80
GHIS83
RSHV1
RPRO4
RYCP5
RALA6
RMP87

site_idAG2
Number of Residues13
Detailsbinding site for residues SHV U 1 and WFP U 2
ChainResidue
KASP27
KILE29
KTYR63
KILE93
LGLN52
LALA53
LTHR80
LHIS83
USER3
UPRO4
UYCP5
UALA6
UMP87

site_idAG3
Number of Residues9
Detailsbinding site for Di-peptide WFP U 2 and SER U 3
ChainResidue
KTYR63
KILE93
LTHR80
LHIS83
USHV1
UPRO4
UYCP5
UALA6
UMP87

site_idAG4
Number of Residues14
Detailsbinding site for residues SHV V 1 and WFP V 2
ChainResidue
LARG23
LLEU24
LASP27
LILE29
LTYR63
MLEU49
MGLN52
MTHR80
MHIS83
MHOH503
VSER3
VPRO4
VALA6
VMP87

site_idAG5
Number of Residues8
Detailsbinding site for Di-peptide WFP V 2 and SER V 3
ChainResidue
LTYR63
MLEU49
MTHR80
MHIS83
VSHV1
VPRO4
VALA6
VMP87

site_idAG6
Number of Residues15
Detailsbinding site for residues SHV X 1 and WFP X 2
ChainResidue
MLEU24
MASP27
MILE29
MTYR63
MLEU115
NLEU49
NPHE50
NGLN52
NTHR80
NHIS83
XSER3
XYCP5
XALA6
XMP87
XHOH101

site_idAG7
Number of Residues10
Detailsbinding site for Di-peptide WFP X 2 and SER X 3
ChainResidue
MTYR63
MLEU115
NLEU49
NTHR80
NHIS83
XSHV1
XPRO4
XYCP5
XALA6
XMP87

site_idAG8
Number of Residues13
Detailsbinding site for residues SHV Y 1 and WFP Y 2
ChainResidue
SLEU24
SASP27
SILE29
STYR63
SMET190
TLEU49
TGLN52
TTHR80
THIS83
YSER3
YPRO4
YYCP5
YALA6

site_idAG9
Number of Residues10
Detailsbinding site for Di-peptide WFP Y 2 and SER Y 3
ChainResidue
STYR63
SMET190
TLEU49
TTHR80
THIS83
YSHV1
YPRO4
YYCP5
YALA6
YMP87

site_idAH1
Number of Residues13
Detailsbinding site for residues SHV Z 1 and WFP Z 2
ChainResidue
ILEU49
IGLN52
IALA53
ITHR80
IHIS83
TARG23
TLEU24
TASP27
TILE29
TTYR63
ZSER3
ZALA6
ZHOH101

site_idAH2
Number of Residues8
Detailsbinding site for Di-peptide WFP Z 2 and SER Z 3
ChainResidue
ILEU49
ITHR80
IHIS83
TTYR63
ZSHV1
ZPRO4
ZALA6
ZMP87

Functional Information from PROSITE/UniProt
site_idPS00381
Number of Residues12
DetailsCLP_PROTEASE_SER Endopeptidase Clp serine active site. TicIGmAASMGS
ChainResidueDetails
ATHR90-SER101

site_idPS00382
Number of Residues14
DetailsCLP_PROTEASE_HIS Endopeptidase Clp histidine active site. RfalPnaeVMIHQP
ChainResidueDetails
AARG112-PRO125

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues14
DetailsACT_SITE: Nucleophile => ECO:0000255|HAMAP-Rule:MF_00444
ChainResidueDetails
ASER98
LSER98
MSER98
NSER98
SSER98
TSER98
BSER98
CSER98
DSER98
ESER98
FSER98
GSER98
ISER98
KSER98

site_idSWS_FT_FI2
Number of Residues14
DetailsACT_SITE: ACT_SITE => ECO:0000255|HAMAP-Rule:MF_00444
ChainResidueDetails
AHIS123
LHIS123
MHIS123
NHIS123
SHIS123
THIS123
BHIS123
CHIS123
DHIS123
EHIS123
FHIS123
GHIS123
IHIS123
KHIS123

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PDB entries from 2024-07-17

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