28EP | pdb_000028ep

Proteinase K filament

• PDB DOI: https://doi.org/10.2210/pdb28EP/pdb
• EM Map EMD-81689: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Parengyodontium album
• Expression System: Parengyodontium album
• Mutation(s): No 


• Deposited: 2026-06-23 Released: 2026-09-02 
• Deposition Author(s): Sleutel, M., Bodson, T., Remaut, H.
• Funding Organization(s): European Commission

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.18 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Protein polymers proliferate polymerization of proteases and phosphatases

Sonani, R., Bodson, T., Remaut, H., Sleutel, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 104-mer - A104 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 3,015.88 kDa 
• Atom Count: 211,328 
• Modeled Residue Count: 29,016 
• Deposited Residue Count: 29,016 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proteinase K	A [auth i], AA [auth 9], AB [auth AY], AC [auth Ay], B [auth j], BA [auth 0], BB [auth AZ], BC [auth Az], C [auth k], CA [auth AA], CB [auth Aa], CC [auth A1], D [auth l], DA [auth AB], DB [auth Ab], DC [auth A2], E [auth m], EA [auth AC], EB [auth Ac], EC [auth A3], F [auth n], FA [auth AD], FB [auth Ad], FC [auth A4], G [auth o], GA [auth AE], GB [auth Ae], GC [auth A5], H [auth p], HA [auth AF], HB [auth Af], HC [auth A6], I [auth q], IA [auth AG], IB [auth Ag], IC [auth A7], J [auth r], JA [auth AH], JB [auth Ah], JC [auth A8], K [auth s], KA [auth AI], KB [auth Ai], KC [auth A9], L [auth t], LA [auth AJ], LB [auth Aj], LC [auth A0], M [auth u], MA [auth AK], MB [auth Ak], MC [auth BA], N [auth v], NA [auth AL], NB [auth Al], NC [auth BB], O [auth w], OA [auth AM], OB [auth Am], OC [auth BC], P [auth x], PA [auth AN], PB [auth An], PC [auth BD], Q [auth y], QA [auth AO], QB [auth Ao], QC [auth BE], R [auth z], RA [auth AP], RB [auth Ap], RC [auth BF], S [auth 1], SA [auth AQ], SB [auth Aq], SC [auth BG], T [auth 2], TA [auth AR], TB [auth Ar], TC [auth BH], U [auth 3], UA [auth AS], UB [auth As], UC [auth BI], V [auth 4], VA [auth AT], VB [auth At], VC [auth BJ], W [auth 5], WA [auth AU], WB [auth Au], WC [auth BK], X [auth 6], XA [auth AV], XB [auth Av], XC [auth BL], Y [auth 7], YA [auth AW], YB [auth Aw], YC [auth BM], Z [auth 8], ZA [auth AX], ZB [auth Ax], ZC [auth BN]	279	Parengyodontium album	Mutation(s): 0  Gene Names: PROK EC: 3.4.21.64
UniProt
Find proteins for P06873 (Parengyodontium album) Explore P06873  Go to UniProtKB:  P06873

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	AD [auth i], AE [auth 9], AF [auth AY], AG [auth Ay], BD [auth j], BE [auth 0], BF [auth AZ], BG [auth Az], CD [auth k], CE [auth AA], CF [auth Aa], CG [auth A1], DD [auth l], DE [auth AB], DF [auth Ab], DG [auth A2], ED [auth m], EE [auth AC], EF [auth Ac], EG [auth A3], FD [auth n], FE [auth AD], FF [auth Ad], FG [auth A4], GD [auth o], GE [auth AE], GF [auth Ae], GG [auth A5], HD [auth p], HE [auth AF], HF [auth Af], HG [auth A6], ID [auth q], IE [auth AG], IF [auth Ag], IG [auth A7], JD [auth r], JE [auth AH], JF [auth Ah], JG [auth A8], KD [auth s], KE [auth AI], KF [auth Ai], KG [auth A9], LD [auth t], LE [auth AJ], LF [auth Aj], LG [auth A0], MD [auth u], ME [auth AK], MF [auth Ak], MG [auth BA], ND [auth v], NE [auth AL], NF [auth Al], NG [auth BB], OD [auth w], OE [auth AM], OF [auth Am], OG [auth BC], PD [auth x], PE [auth AN], PF [auth An], PG [auth BD], QD [auth y], QE [auth AO], QF [auth Ao], QG [auth BE], RD [auth z], RE [auth AP], RF [auth Ap], RG [auth BF], SD [auth 1], SE [auth AQ], SF [auth Aq], SG [auth BG], TD [auth 2], TE [auth AR], TF [auth Ar], TG [auth BH], UD [auth 3], UE [auth AS], UF [auth As], UG [auth BI], VD [auth 4], VE [auth AT], VF [auth At], VG [auth BJ], WD [auth 5], WE [auth AU], WF [auth Au], WG [auth BK], XD [auth 6], XE [auth AV], XF [auth Av], XG [auth BL], YD [auth 7], YE [auth AW], YF [auth Aw], YG [auth BM], ZD [auth 8], ZE [auth AX], ZF [auth Ax], ZG [auth BN]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.18 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-09-02 
Deposition Author(s): Sleutel, M., Bodson, T., Remaut, H.

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Funding Organization	Location	Grant Number
European Commission	European Union	101046719

Revision History  

• Version 1.0: 2026-09-02
  Type: Initial release