PDBsum entry 3w15

Protein transport

PDB id: 3w15

Contents

Protein chains

336 a.a.

72 a.a.

389 a.a.

Ligands

NO3 ×9

Metals

_MG ×6

Waters ×563

PDB id:

3w15

Name:

Protein transport

Title:

Structure of peroxisomal targeting signal 2 (pts2) of saccharomyces cerevisiae 3-ketoacyl-coa thiolase in complex with pex7p and pex21p

Structure:

Peroxisomal targeting signal 2 receptor. Chain: a. Synonym: pts2 receptor, peroxin-7, peroxisome import protein pas7. Engineered: yes. Mutation: yes. Peroxisomal membrane protein pex21. Chain: b. Fragment: unp residue 190-288. Synonym: peroxin-21.

Source:

Saccharomyces cerevisiae. Yeast. Organism_taxid: 559292. Strain: s288c. Gene: pex7. Expressed in: komagataella pastoris. Expression_system_taxid: 4922. Gene: pex21. Expressed in: escherichia coli.

Resolution:

1.80Å R-factor: 0.191 R-free: 0.224

Authors:

D.Pan,T.Nakatsu,H.Kato

Key ref:

D.Pan et al. (2013). Crystal structure of peroxisomal targeting signal-2 bound to its receptor complex Pex7p-Pex21p. Nat Struct Biol, 20, 987-993. PubMed id: 23812376 DOI: 10.1038/nsmb.2618

Date:

06-Nov-12 Release date: 03-Jul-13

Protein chain

P39108  (PEX7_YEAST) -  Peroxisomal targeting signal 2 receptor from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 375 a.a.

Struc: 336 a.a.

Protein chain

P50091  (PEX21_YEAST) -  Peroxisomal protein PEX21 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 288 a.a.

Struc: 72 a.a.

Protein chain

P0AEX9  (MALE_ECOLI) -  Maltose/maltodextrin-binding periplasmic protein from Escherichia coli (strain K12)

Seq: 396 a.a.

Struc: 389 a.a.*

Protein chain

P27796  (THIK_YEAST) -  3-ketoacyl-CoA thiolase, peroxisomal from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 417 a.a.

Struc: 389 a.a.*

* PDB and UniProt seqs differ at 370 residue positions (black crosses)

Enzyme reactions

• Enzyme class: Chain C: E.C.2.3.1.16 - acetyl-CoA C-acyltransferase.
• Reaction: an acyl-CoA + acetyl-CoA = a 3-oxoacyl-CoA + CoA

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

DOI no: 10.1038/nsmb.2618

Nat Struct Biol 20:987-993 (2013)

PubMed id: 23812376

Crystal structure of peroxisomal targeting signal-2 bound to its receptor complex Pex7p-Pex21p.

D.Pan, T.Nakatsu, H.Kato.

ABSTRACT

Appropriate targeting of matrix proteins to peroxisomes is mainly directed by two types of peroxisomal targeting signals, PTS1 and PTS2. Although the basis of PTS1 recognition has been revealed by structural studies, that of PTS2 recognition remains elusive. Here we present the crystal structure of a heterotrimeric PTS2-recognition complex from Saccharomyces cerevisiae, containing Pex7p, the C-terminal region of Pex21p and the PTS2 of the peroxisomal 3-ketoacyl-CoA thiolase. Pex7p forms a β-propeller structure and provides a platform for cooperative interactions with both the amphipathic PTS2 helix and Pex21p. The C-terminal region of Pex21p directly covers the hydrophobic surfaces of both Pex7p and PTS2, and the resulting hydrophobic core is the primary determinant of stable complex formation. Together with in vivo and in vitro functional assays of Pex7p and Pex21p variants, our findings reveal the molecular mechanism of PTS2 recognition.