Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 53.43 kDa 
• Atom Count: 4196 
• Residue Count: 496 
• Unique protein chains: 1

1WYI

human triosephosphate isomerase of new crystal form

• DOI: 10.2210/pdb1WYI/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-02-14 Released: 2005-04-12 
• Deposition Author(s): Kinoshita, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.296 
• R-Value Work: 0.247 
• R-Value Observed: 0.266 

Literature

Structure of a high-resolution crystal form of human triosephosphate isomerase: improvement of crystals using the gel-tube method.

Kinoshita, T., Maruki, R., Warizaya, M., Nakajima, H., Nishimura, S.

(2005) Acta Crystallogr Sect F Struct Biol Cryst Commun 61: 346-349

• PubMed: 16511037 
• DOI: 10.1107/S1744309105008341
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Crystals of human triosephosphate isomerase with two crystal morphologies were obtained using the normal vapour-diffusion technique with identical crystallization conditions. One had a disordered plate shape and the crystals were hollow (crystal form 1). As a result, this form was very fragile, diffracted to 2.8 A resolution and had similar crystallographic parameters to those of the structure 1hti in the Protein Data Bank. The other had a fine needle shape (crystal form 2) and was formed more abundantly than crystal form 1, but was unsuitable for structure analysis. Since the normal vapour-diffusion method could not control the crystal morphology, gel-tube methods, both on earth and under microgravity, were applied for crystallization in order to control and improve the crystal quality. Whereas crystal form 1 was only slightly improved using this method, crystal form 2 was greatly improved and diffracted to 2.2 A resolution. Crystal form 2 contained a homodimer in the asymmetric unit, which was biologically essential. Its overall structure was similar to that of 1hti except for the flexible loop, which was located at the active centre Lys13.

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Organizational Affiliation: 

Exploratory Research Laboratories, Fujisawa Pharmaceutical Co. Ltd, 5-2-3 Tokodai, Tsukuba, Ibaraki 300-2698, Japan. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Triosephosphate isomerase	A, B	250	Homo sapiens	Mutation(s): 0  Gene Names: TPI1, TPI EC: 5.3.1.1 (PDB Primary Data), 4.2.3.3 (UniProt)
Find proteins for P60174 (Homo sapiens) Go to UniProtKB:  P60174
NIH Common Fund Data Resources
PHAROS  P60174 GTEx  ENSG00000111669

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.296 
• R-Value Work: 0.247 
• R-Value Observed: 0.266 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.564	α = 90
b = 70.883	β = 90
c = 141.412	γ = 90

Software Package:

Software Name	Purpose
CNX	refinement
CrystalClear	data scaling
CNX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-02-14 
• Released Date: 2005-04-12 
Deposition Author(s): Kinoshita, T.

Revision History 

• Version 1.0: 2005-04-12
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description