PDBsum entry 5mp9

Hydrolase

PDB id: 5mp9

Contents

Protein chains

241 a.a.

250 a.a.

244 a.a.

240 a.a.

242 a.a.

231 a.a.

243 a.a.

196 a.a.

226 a.a.

204 a.a.

195 a.a.

212 a.a.

222 a.a.

232 a.a.

390 a.a.

385 a.a.

389 a.a.

388 a.a.

381 a.a.

386 a.a.

Ligands

ATP ×5

ADP

Metals

_MG ×6

PDB id:

5mp9

Name:

Hydrolase

Title:

26s proteasome in presence of atp (s1)

Structure:

Proteasome subunit alpha type-1. Chain: a, a. Synonym: macropain subunit c7-alpha,multicatalytic endopeptidase complex c7,proteasome component c7-alpha,proteasome component y8, proteinase ysce subunit 7,scl1 suppressor protein. Proteasome subunit alpha type-2. Chain: b, b. Synonym: macropain subunit y7,multicatalytic endopeptidase complex subunit y7,proteasome component y7,proteinase ysce subunit 7.

Source:

Saccharomyces cerevisiae (strain atcc 204508 / s288c). Baker's yeast. Organism_taxid: 559292. Organism_taxid: 559292

Authors:

M.Wehmer,T.Rudack,F.Beck,A.Aufderheide,G.Pfeifer,J.M.Plitzko, F.Foerster,K.Schulten,W.Baumeister,E.Sakata

Key ref:

M.Wehmer et al. (2017). Structural insights into the functional cycle of the ATPase module of the 26S proteasome. Proc Natl Acad Sci U S A, 114, 1305-1310. PubMed id: 28115689

Date:

16-Dec-16 Release date: 08-Mar-17

Protein chains

P21243  (PSA1_YEAST) -  Proteasome subunit alpha type-1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 252 a.a.

Struc: 241 a.a.

Protein chains

P23639  (PSA2_YEAST) -  Proteasome subunit alpha type-2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 250 a.a.

Struc: 250 a.a.

Protein chains

P23638  (PSA3_YEAST) -  Proteasome subunit alpha type-3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 258 a.a.

Struc: 244 a.a.

Protein chains

P40303  (PSA4_YEAST) -  Proteasome subunit alpha type-4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 254 a.a.

Struc: 240 a.a.

Protein chains

P32379  (PSA5_YEAST) -  Proteasome subunit alpha type-5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 260 a.a.

Struc: 242 a.a.

Protein chains

P40302  (PSA6_YEAST) -  Proteasome subunit alpha type-6 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 234 a.a.

Struc: 231 a.a.

Protein chains

P21242  (PSA7_YEAST) -  Probable proteasome subunit alpha type-7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 288 a.a.

Struc: 243 a.a.

Protein chains

P38624  (PSB1_YEAST) -  Proteasome subunit beta type-1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 215 a.a.

Struc: 196 a.a.

Protein chains

P25043  (PSB2_YEAST) -  Proteasome subunit beta type-2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 261 a.a.

Struc: 226 a.a.

Protein chains

P25451  (PSB3_YEAST) -  Proteasome subunit beta type-3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 205 a.a.

Struc: 204 a.a.

Protein chains

P22141  (PSB4_YEAST) -  Proteasome subunit beta type-4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 198 a.a.

Struc: 195 a.a.

Protein chains

P30656  (PSB5_YEAST) -  Proteasome subunit beta type-5 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 287 a.a.

Struc: 212 a.a.

Protein chains

P23724  (PSB6_YEAST) -  Proteasome subunit beta type-6 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 241 a.a.

Struc: 222 a.a.

Protein chains

P30657  (PSB7_YEAST) -  Proteasome subunit beta type-7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 266 a.a.

Struc: 232 a.a.

Protein chain

P33299  (PRS7_YEAST) -  26S proteasome regulatory subunit 7 homolog from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 467 a.a.

Struc: 390 a.a.

Protein chain

P40327  (PRS4_YEAST) -  26S proteasome regulatory subunit 4 homolog from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 437 a.a.

Struc: 385 a.a.

Protein chain

P33298  (PRS6B_YEAST) -  26S proteasome regulatory subunit 6B homolog from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 428 a.a.

Struc: 389 a.a.

Protein chain

P53549  (PRS10_YEAST) -  26S proteasome subunit RPT4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 437 a.a.

Struc: 388 a.a.

Protein chain

P33297  (PRS6A_YEAST) -  26S proteasome regulatory subunit 6A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 434 a.a.

Struc: 381 a.a.

Protein chain

Q01939  (PRS8_YEAST) -  26S proteasome regulatory subunit 8 homolog from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 405 a.a.

Struc: 386 a.a.

Enzyme reactions

• Enzyme class: Chains a, b, c, d, e, f, g, h, i, j, k, l, m, n, A, B, C, D, E, F, G, 1, 2, 3, 4, 5, 6, 7: E.C.3.4.25.1 - proteasome endopeptidase complex.
• Reaction: Cleavage at peptide bonds with very broad specificity.

Proc Natl Acad Sci U S A 114:1305-1310 (2017)

PubMed id: 28115689

Structural insights into the functional cycle of the ATPase module of the 26S proteasome.

M.Wehmer, T.Rudack, F.Beck, A.Aufderheide, G.Pfeifer, J.M.Plitzko, F.Förster, K.Schulten, W.Baumeister, E.Sakata.

ABSTRACT

In eukaryotic cells, the ubiquitin-proteasome system (UPS) is responsible for the regulated degradation of intracellular proteins. The 26S holocomplex comprises the core particle (CP), where proteolysis takes place, and one or two regulatory particles (RPs). The base of the RP is formed by a heterohexameric AAA(+) ATPase module, which unfolds and translocates substrates into the CP. Applying single-particle cryo-electron microscopy (cryo-EM) and image classification to samples in the presence of different nucleotides and nucleotide analogs, we were able to observe four distinct conformational states (s1 to s4). The resolution of the four conformers allowed for the construction of atomic models of the AAA(+) ATPase module as it progresses through the functional cycle. In a hitherto unobserved state (s4), the gate controlling access to the CP is open. The structures described in this study allow us to put forward a model for the 26S functional cycle driven by ATP hydrolysis.