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TitleAAA+ protease-adaptor structures reveal altered conformations and ring specialization.
Journal, issue, pagesNat Struct Mol Biol, Vol. 29, Issue 11, Page 1068-1079, Year 2022
Publish dateNov 3, 2022
AuthorsSora Kim / Xue Fei / Robert T Sauer / Tania A Baker /
PubMed AbstractClpAP, a two-ring AAA+ protease, degrades N-end-rule proteins bound by the ClpS adaptor. Here we present high-resolution cryo-EM structures of Escherichia coli ClpAPS complexes, showing how ClpA pore ...ClpAP, a two-ring AAA+ protease, degrades N-end-rule proteins bound by the ClpS adaptor. Here we present high-resolution cryo-EM structures of Escherichia coli ClpAPS complexes, showing how ClpA pore loops interact with the ClpS N-terminal extension (NTE), which is normally intrinsically disordered. In two classes, the NTE is bound by a spiral of pore-1 and pore-2 loops in a manner similar to substrate-polypeptide binding by many AAA+ unfoldases. Kinetic studies reveal that pore-2 loops of the ClpA D1 ring catalyze the protein remodeling required for substrate delivery by ClpS. In a third class, D2 pore-1 loops are rotated, tucked away from the channel and do not bind the NTE, demonstrating asymmetry in engagement by the D1 and D2 rings. These studies show additional structures and functions for key AAA+ elements. Pore-loop tucking may be used broadly by AAA+ unfoldases, for example, during enzyme pausing/unloading.
External linksNat Struct Mol Biol / PubMed:36329286 / PubMed Central
MethodsEM (single particle)
Resolution3.22 - 3.38 Å
Structure data

26554

7uiv

EMDB-26554, PDB-7uiv:
ClpAP complex bound to ClpS N-terminal extension, class IIa
Method: EM (single particle) / Resolution: 3.38 Å

26555

7uiw

EMDB-26555, PDB-7uiw:
ClpAP complex bound to ClpS N-terminal extension, class IIb
Method: EM (single particle) / Resolution: 3.33 Å

26556

7uix

EMDB-26556, PDB-7uix:
ClpAP complex bound to ClpS N-terminal extension, class I
Method: EM (single particle) / Resolution: 3.24 Å

26557

7uiy

EMDB-26557, PDB-7uiy:
ClpAP complex bound to ClpS N-terminal extension, class IIIa
Method: EM (single particle) / Resolution: 3.22 Å

26558

7uiz

EMDB-26558, PDB-7uiz:
ClpAP complex bound to ClpS N-terminal extension, class IIc
Method: EM (single particle) / Resolution: 3.24 Å

26559

7uj0

EMDB-26559, PDB-7uj0:
ClpAP complex bound to ClpS N-terminal extension, class IIIb
Method: EM (single particle) / Resolution: 3.26 Å

Chemicals

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-AGS:
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER / ATP-gamma-S, energy-carrying molecule analogue*YM

ChemComp-MG:
Unknown entry

Source
  • escherichia coli (E. coli)
KeywordsCHAPERONE / AAA+ protease / Adaptor / protein complex

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