Conserved Protein Domain Family
S14_ClpP_1

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cd07016: S14_ClpP_1 
Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease
Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP, although the proteolytic subunit alone does possess some catalytic activity. Active site consists of the triad Ser, His and Asp; some members have lost all of these active site residues and are therefore inactive, while others may have one or two large insertions. ClpP seems to prefer hydrophobic or non-polar residues at P1 or P1' positions in its substrate. The protease exists as a tetradecamer made up of two heptameric rings stacked back-to-back such that the catalytic triad of each subunit is located at the interface between three monomers, thus making oligomerization essential for function.
Statistics
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PSSM-Id: 132927
View PSSM: cd07016
Aligned: 111 rows
Threshold Bit Score: 108.391
Threshold Setting Gi: 110633689
Created: 25-Nov-2008
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
active siteoligomer
Feature 1:active site residues [active site]
Evidence:
  • Comment:The catalytic triad is in the order Ser, His, Asp, which is an arrangement not seen in peptidases of any other family.
  • Citation:PMID 9390554

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 160873909  26 AELMIYDEIggw----gisAQQFARDLQALGKv----GTITARIHSPGGDVFEGMAIYNMIKGh-----pAHKVCYIDGL 92
gi 189463031  37 STIFLYGDIgdyt---evqSGRIAQELMEAERv---sRRIHVRINSNGGEVYSGIAIFNALRHs-----qADIRIYVDGI 105
gi 124009662  17 AHILLYDKIgvdeegkgisGRRFAEELFRLTKr---fRRINVRINSPGGKITDGLSICAAILNinqstpnVRIDTYVDGL 93
gi 160890235   4 TVITLFGTIdry----wynKNYLKYFLDKAKG-----QPVRLKVSSYGGDVAEAVAMSALMAEh------GNVTVEFISF 68
gi 167753873  67 PEEWQFDQPssr----vatYEKFRDSLDRLREid--aPEIVVNIRSTGGDVNDALLIYEALSSl-----dGHIVTRCYGY 135
gi 224025320  19 AVIRFFGRVte------etTSRFNDEFDFLENii-rpSCIRVLINSEGGSVLYGMSTYSTIANa-----tVDTECIIEGV 86
gi 110633689  41 AKVFFVGEVte------rkVAELVSVLDRLNSehkalQSIYLYINSPGGDMDSAQAAYWAIKSs-----pIPVIAVNIST 109
gi 167754301  19 ASIRFFGRIte------esAGRFSEAFDFLENiv-rpSLIRVLINSEGGSVLHGMTVYAAIQNa-----sVPTECVIEGM 86
gi 224826601  35 SEISFYLCGei------qaSHFYTNLFYTLRSas-etDIIYLHLNTTGGDFDTGMQIINNMQSs-----cAHVITVLEAR 102
gi 34496600   28 RQISFYLSEei------gaAIHYTDLLYTLRTas-stDIVYLHLNTPGGNFDAGLQIINNITAs-----qAHVVTILEAR 95
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          #                         #                                                   
gi 160873909  93 AASMASVIAMAFD---EVIMPeNAMMMVHKPWGGTlgd-----------aeDMRKYADLLDKVEGNLVSAYQHKTGlseD 158
gi 189463031 106 AASMASVIALCGK---PVEMSkYARLMLHSVSGGCygn-----------kqDLQRCMEEIESLEGSLSEIYAERLGmskE 171
gi 124009662  94 ALSIAGLIAVCGK---KVGMCnFAKLMLHNPFIGGkng----------tqnGGIEQHETLMQVKEMLLTLLATRTGqkvE 160
gi 160890235  69 NASAATVLAFGAK---SIEMHeDGMWLAHKCSLGVdiwgqlnadqledtikELQNKKKSAEAIDLMIAQKYINRSGkslK 145
gi 167753873 136 TASAATVIAQAASegcREISA-HALYLIHNSICTAegn-----------aeELATRIDLLRKTDARLAEVYAARSGrtpE 203
gi 224025320  87 AASMASIIWAAGK---RSLMRdYAILMIHNPMLPDddg-----------gePSDMVTAFTKQIETIYRKRFGLKAEh-vR 151
gi 110633689 110 VASVAAVMFCGAAe--RAAFP-NTYFILKPASVTLpems--------mqpvHFELSRELLKSYNEVFESVYRECTSlsaD 178
gi 167754301  87 AASMGSVIWAAGD---KSFMRdYGILMIHNPFLPDend-----------gePSELVKAFTAQIETIYRKRFGLSHEk-vR 151
gi 224826601 103 AYSMGALIFLAGD---ELEVQdNCQLMFHIYSGTFagr-----------gtEQQAQIQAVSSWFEKVMQRICQPFLs-tA 167
gi 34496600   96 AYSMGALIFLAGD---ELVVHdTCQLMFHNYSSALigk-----------gnEQQAQVAASGKWFEKVMRHVCRPFLt-dE 160
                        170       180       190
                 ....*....|....*....|....*....|...
Feature 1                    #                    
gi 160873909 159 ELHALLAa----ETWLTG--REAVEKGF-ANTL 184
gi 189463031 172 EVKQTYFdg--eDHWLTA--KEALDLGF-IDDI 199
gi 124009662 161 DLSLMMNq----TTWLSA--AEAKRQGF-VDEV 186
gi 160890235 146 DIITLMEe----ERWMPA--AEAKEWGF-IDKI 171
gi 167753873 204 EFTLLMAenngsGRWLSP--QEALAAGL-VDRI 233
gi 224025320 152 AIMDGQAgk--dGTYFDA--QAAVKAGI-IPAE 179
gi 110633689 179 EISAVIEs---eDNRLLVraSEAREKGI-ISSE 207
gi 167754301 152 AIMDGAAgq--dGTFFDA--AAAVKAGI-IPES 179
gi 224826601 168 EVDKVLKg---aDVWMDS--DEIRRRLSrLQRA 195
gi 34496600  161 ELDRILKg---eDIWLDS--DGIRRRLNnIQKG 188

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