Clp Protease 3D structures

3D structures of Clp protease

Updated on 08-April-2026

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• Clp P subunit or ATP-dependent Clp protease proteolytic subunit
  • 1tg6, 8w7c - hClpP – human
    
  • 1tyf, 1yg6 – EcClpP – Escherichia coli
    
  • 1yg8, 3hln - EcClpP (mutant)
    
  • 1y7o – SpClpP – Streptococcus pneumonia
    
  • 2f6i, 4gm2, 4hnk – ClpP – Plasmodium falciparum
    
  • 2cby, 2ce3, 2c8t, 4u0h, 5e0s, 5dzk – MtClpP1 + ClpP2 – Mycobacterium tuberculosis
    
  • 6vgk – MtClpP1 + ClpP2 – Cryo EM
    
  • 6mx2 – CdClpP1 - Clostridium difficile
    
  • 3ktg, 3kth, 3tt6 – BsClpP – Bacillus subtilis
    
  • 7feq, 7fes - BsClpP – Cryo EM
    
  • 3q7h - ClpP – Coxiella burnetii
    
  • 3qwd, 3st9, 3sta, 3v5e, 4emm, 4mxi, 6tty - SaClpP – Staphylococcus aureus
    
  • 3v5i, 4emp, 5c90, 6dkf - SaClpP (mutant)
    
  • 8cj4 - SeClpP – Staphylococcus epidermidis
    
  • 2zl0 - HpClpP – Helicobacter pylori
    
  • 2zl3 - HpClpP (mutant)
    
  • 4jcq, 4jct, 4ryf – LmClp – Listeria monocytogenes
    
  • 6sfx - LmClpP – Cryo EM
    
  • 4jcr - LmCLP (mutant)
    
  • 5g1s, 5g1r, 5g1q, 3p2l - ClpP – Francisella tularensis
    
  • 6naq – NmClpP – Neisseria meningitidis
    
  • 7kr2 - NmClpP – Cryo EM
    
  • 6naw, 6nay - NmCLP (mutant)
    
  • 6pbu – MsClpP – Mycobacterium smegmatis
    
  • 7m1l, 7m1m – PaClpP – Pseudomonas aeruginosa
    
  • 6x60 – ClpP2 – Chlamydia trachomatis
    
  • 7dft – XoClpP – Xanthomonas oryzae
    
  • 8xn4 – ShClpP (mutant) – Streptomyces hawaiiensis – Cryo EM
    
• Clp P subunit binary complex
  • 6h23 - hClpP (mutant) + carboxamide derivative
    
  • 6dl7, 6nb1, 7uvm, 7uvn, 7uvr, 7uvu, 7vp9, 7wh5, 8i7x, 8wuz, 8ylb - hClpP + pyrimidine derivative
    
  • 7uw0, 8hgk – hClpP + inhibitor
    
  • 6bba - hClpP + ADEP-28
    
  • 8w7e – hClpP + activator
    
  • 2fzs, 3mt6 - EcClpP + ADEP-1
    
  • 7mk5, 8szm – EcClpP + inhibitor
    
  • 6hwm – EcClpP + drug
    
  • 8qyf – SeClpP + drug
    
  • 2zl2 - HpClpP + peptide
    
  • 2zl4 - HpClpP (mutant) + peptide
    
  • 3kti, 3ktj, 3ktk - BsClpP + ADEP-1
    
  • 3tt7 - BsClpP + DFP
    
  • 6iw7 – MtClpP1 + ClpP2 + drug
    
  • 7x8x – MtClpP1 + ClpP2 + inhibitor
    
  • 6vgn – MtClpP1 + ClpP2 + ADEP
    
  • 6vgq – MtClpP1 + ClpP2 + peptide – Cryo EM
    
  • 5dl1, 6l3x, 6l40, 6n80, 8e71, 8e7p, 8oll, 8r03, 8r04, 9irm, 9irp – SaClpP + inhibitor
    
  • 8ef8 – SaClpP (mutant) + inhibitor
    
  • 5w18, 5vz2, 6pka, 6pmd – SaClpP + peptide
    
  • 7wgs, 7wid, 7xbz – SaClpP + activator
    
  • 6ttz – SaClpP + ADEP-4
    
  • 5dkp – NmClpP + ADEP
    
  • 6nah - NmClpP + ADEP-14
    
  • 6w9t, 8szn – NmClpP + inhibitor
    
  • 8dla – CtClpP2 + inhibitor
    
  • 8r05 – ClpP + inhibitor – Photorhabdus laumondii
    
  • 7fep, 7fer – BsClpP + ADEP1 – Cryo EM
    
  • 7p80, 7p81 – BsClpP + ADEP2
    
  • 6vxf - NmClpP + ClpX + ADP + ATP – Cryo EM
    
  • 6cfd – ClpP + ADEP-4 – Enterococcus faecium
    
  • 7dfu – XoClpP + ADEP-4
    
  • 6hwn – ClpP + tripeptide – Thermus thermophilus
    
  • 8xop – ShClpP (mutant) + ADEP-1 – Cryo EM
    
• Clp P subunit higher complexes
  • 4u0g – MtClpP1 + ClpP2 + ADEP + agonist
    
  • 6emw – SaClpP in MECA complex – Cryo EM
    
  • 8xon, 8xoo – ShClpP (mutant) + casein + ketoreductase – Cryo EM
    
  • 7eko, 7ekq – ClpP in chloroplast complex – Chlamydomonas reinhardtii – Cryo EM
    
• Clp C
  • 8xqu – hClpC1 N terminal
    
  • 5gui – AtClpC1 N terminal – Arabidopsis thaliana
    
  • 3fes - CdClpC
    
  • 6pbq, 8b9u - MtClp N-terminal domain
    
  • 8a8u, 8a8v, 8a8w - MtClp + antibiotic + ADP
    
  • 6cn8, 6pbs - MtClp N-terminal domain 1-145 + antibiotics
    
  • 8otk - BsClp N-terminal domain (mutant)
    
  • 8b3s - BsClp N-terminal domain + YJBA
    
  • 6em8, 6em9 - SaClp – Cryo EM
    
  • 8p66 - PaClpC - NMR
    
• Clp S or ATP-dependent Clp protease adapter protein ClpS
  • 7d34 – AtClpS1 + dipeptide
    
  • 9ayn, 9ayp, 9az5 - MsClp
    
  • 9b06 - MsClp + Thr
    
  • 9ayo, 9b10, 9b1p - MsClp + dipeptide
    
• Clp X or ATP-dependent Clp protease ATP-binding subunit ClpXP
  • 6pba - MtClp N-terminal domain
    
  • 3hte, 4i34, 4i5o, 4i63, 4i9k - EcClp
    
  • 3hws, 4i4l - EcClp + ADP
    
  • 4i81 - EcClp + ATPgS
    
  • 6pp5 - EcClp + ADP – Cryo EM
    
  • 6pp6, 6pp7, 6pp8 - EcClp + ADP + ATPgS – Cryo EM
    
  • 9c87, 9c88 - EcClp + DHFR + ADP + ATP – Cryo EM
    
  • 8v9r - EcClp + DHFR + ADP + ATP + methotrexate – Cryo EM
    
  • 6sfw - LmClp - Cryo EM
    
  • 6lsy - SpClp - Cryo EM
    
  • 6lt4 - SpClp + ATPgS – Cryo EM
    
• ClpP+ClpX
  • 6ppe, 6wr2, 8e7v – EcClpP + ClpX – Cryo EM
    
  • 6po1, 6wsg – EcClpP + ClpX + ATP-gS – Cryo EM
    
  • 8e91 – EcClpP + ClpX + ADP + ATP-gS – Cryo EM
    
  • 8e8q – EcClpP + ClpX (mutant) + ADP + ATP – Cryo EM
    
  • 6po3, 6pod, 6pos – EcClpP + ClpX + peptide + ADP + ATP-gS – Cryo EM
    
  • 6wrf – EcClpP + ClpX + GFP + ADP + ATP-gS – Cryo EM
    
  • 8et3 – EcClpP + ClpX + GFP + SSPB + ADP + ATP-gS – Cryo EM
    
  • 6vfs, 6vfx – NmClpP + ClpX + peptide + ADP + ATP – Cryo EM
    
  • 6vxf - NmClpP + ClpX + ADP + ATP – Cryo EM
    
• ClpP+ClpA
  • 6uqe, 6uqo, 6w1z, 6w20, 6w21, 6w23 – EcClpP + ClpA + RepA + ADP + ATP – Cryo EM
    
• ClpP+ClpA+ClpS
  • 7uiv, 7uiw, 7uix, 7uiy, 7uiz, 7uj0 – EcClpP + ClpA + ClpS + ADP + ATP-gS – Cryo EM
    
• For Clp A subunit and Clp N see Heat Shock Proteins Hsp100

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Jaime Prilusky, Openfox