Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 33.53 kDa 
• Atom Count: 2507 
• Modelled Residue Count: 290 
• Deposited Residue Count: 293 
• Unique protein chains: 1

1MTZ

Crystal Structure of the Tricorn Interacting Factor F1

• PDB DOI: 10.2210/pdb1MTZ/pdb

• Classification: HYDROLASE
• Organism(s): Thermoplasma acidophilum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-09-23 Released: 2002-11-06 
• Deposition Author(s): Goettig, P., Groll, M., Kim, J.-S., Huber, R., Brandstetter, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.236 
• R-Value Work: 0.199 
• R-Value Observed: 0.236 

Literature

Structures of the tricorn-interacting aminopeptidase F1 with different ligands explain its catalytic mechanism

Goettig, P., Groll, M., Kim, J.-S., Huber, R., Brandstetter, H.

(2002) EMBO J 21: 5343-5352

• PubMed: 12374735 
• DOI: 10.1093/emboj/cdf552
• Primary Citation of Related Structures:  
  1MT3, 1MTZ, 1MU0


• PubMed Abstract: 
  

F1 is a 33.5 kDa serine peptidase of the alpha/beta-hydrolase family from the archaeon Thermoplasma acidophilum. Subsequent to proteasomal protein degradation, tricorn generates small peptides, which are cleaved by F1 to yield single amino acids. We have solved the crystal structure of F1 with multiwavelength anomalous dispersion (MAD) phasing at 1.8 A resolution. In addition to the conserved catalytic domain, the structure reveals a chiefly alpha-helical domain capping the catalytic triad. Thus, the active site is accessible only through a narrow opening from the protein surface. Two structures with molecules bound to the active serine, including the inhibitor phenylalanyl chloromethylketone, elucidate the N-terminal recognition of substrates and the catalytic activation switch mechanism of F1. The cap domain mainly confers the specificity for hydrophobic side chains by a novel cavity system, which, analogously to the tricorn protease, guides substrates to the buried active site and products away from it. Finally, the structure of F1 suggests a possible functional complex with tricorn that allows efficient processive degradation to free amino acids for cellular recycling.

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Organizational Affiliation: 

Max-Planck-Institut für Biochemie, Abteilung Strukturforschung, Am Klopferspitz 18a, D-82152 Martinsried, Germany. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proline iminopeptidase	A	293	Thermoplasma acidophilum	Mutation(s): 0  Gene Names: Ta0830 EC: 3.4.11.5
UniProt
Find proteins for P96084 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore P96084  Go to UniProtKB:  P96084

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.236 
• R-Value Work: 0.199 
• R-Value Observed: 0.236 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.961	α = 90
b = 57.095	β = 90
c = 82.274	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALA	data scaling
CNS	refinement
CCP4	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-09-23 
• Released Date: 2002-11-06 
Deposition Author(s): Goettig, P., Groll, M., Kim, J.-S., Huber, R., Brandstetter, H.

Revision History  

• Version 1.0: 2002-11-06
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance