Biological Assembly 1  

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Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 103401.76 
• Atom Count: 6744 
• Residue Count: 912 
• Unique protein chains: 1

1TPL

THE THREE-DIMENSIONAL STRUCTURE OF TYROSINE PHENOL-LYASE

• DOI: 10.2210/pdb1TPL/pdb

• Classification: LYASE(CARBON-CARBON)
• Organism(s): Citrobacter freundii


• Deposited: 1992-11-25 Released: 1993-10-31 
• Deposition Author(s): Antson, A., Demidkina, T., Dauter, Z., Harutyunyan, E., Wilson, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å

Literature

Three-dimensional structure of tyrosine phenol-lyase.

Antson, A.A., Demidkina, T.V., Gollnick, P., Dauter, Z., von Tersch, R.L., Long, J., Berezhnoy, S.N., Phillips, R.S., Harutyunyan, E.H., Wilson, K.S.

(1993) Biochemistry 32: 4195-4206

• PubMed: 7916622 


• PubMed Abstract: 
  

Tyrosine phenol-lyase (EC 4.1.99.2) from Citrobacter freundii has been cloned and the primary sequence deduced from the DNA sequence. From the BrCN digest of the NaBH4-reduced holoenzyme, five peptides were purified and sequenced. The amino acid sequences of the peptides agreed with the corresponding parts of the tyrosine phenol-lyase sequence obtained from the gene structure. K257 is the pyridoxal 5'-phosphate binding residue. Assisted by the sequence data, the crystal structure of apotyrosine phenol-lyase, a pyridoxal 5'-phosphate-dependent enzyme, has been refined to an R-factor of 16.2% at 2.3-A resolution using synchrotron radiation diffraction data. The tetrameric molecule has 222 symmetry, with one of the axes coincident with the crystallographic 2-fold symmetry axis of the crystal which belongs to the space group P2(1)2(1)2 with a = 76.0 A, b = 138.3 A, and c = 93.5 A. Each subunit comprises 14 alpha-helices and 16 beta-strands, which fold into a small and a large domain. The coenzyme-binding lysine residue is located at the interface between the large and small domains of one subunit and the large domain of a crystallographically related subunit. The fold of the large, pyridoxal 5'-phosphate binding domain and the location of the active site are similar to that found in aminotransferases. Most of the residues which participate in binding of pyridoxal 5'-phosphate in aminotransferases are conserved in the structure of tyrosine phenol-lyase. Two dimers of tyrosine phenol-lyase, each of which has a domain architecture similar to that found in aspartate aminotransferases, are bound together through a hydrophobic cluster in the center of the molecule and intertwined N-terminal arms.

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Related Citations: 

• The Polypeptide Chain Fold in Tyrosine Phenol-Lyase, a Pyridoxal-5'-Phosphate-Dependent Enzyme
  Antson, A.A.,Strokopytov, B.V.,Murshudov, G.N.,Isupov, M.N.,Harutyunyan, E.H.,Demidkina, T.V.,Vassylyev, D.G.,Dauter, Z.,Terry, H.,Wilson, K.S.
  (1992) FEBS Lett. 302: 256




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Organizational Affiliation: 

Shubnikov Institute of Crystallography, Russian Academy of Sciences, Moscow.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
TYROSINE PHENOL-LYASE	A, B	456	Citrobacter freundii	Mutation(s): 0  Gene Names: tpl EC: 4.1.99.2
Find proteins for P31013 (Citrobacter freundii) Go to UniProtKB:  P31013

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A, B	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 76.020	α = 90.00
b = 138.270	β = 90.00
c = 93.540	γ = 90.00

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1992-11-25 
• Released Date: 1993-10-31 
• Deposition Author(s): Antson, A., Demidkina, T., Dauter, Z., Harutyunyan, E., Wilson, K.

Revision History 

• Version 1.0: 1993-10-31
  Type: Initial release
• Version 1.1: 2008-03-03
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Derived calculations, Version format compliance
• Version 1.3: 2011-11-16
  Type: Atomic model