1TA9 | pdb_00001ta9

Crystal structure of glycerol dehydrogenase from Schizosaccharomyces pombe

• PDB DOI: https://doi.org/10.2210/pdb1TA9/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Schizosaccharomyces pombe
• Mutation(s): No 


• Deposited: 2004-05-19 Released: 2005-08-16 
• Deposition Author(s): Mulichak, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.209 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.182 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Literature

Crystal structure of glycerol dehydrogenase from Schyzosaccharomyces pombe

Mulichak, A.M.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Macromolecule Content 

• Total Structure Weight: 99.65 kDa 
• Atom Count: 6,652 
• Modeled Residue Count: 783 
• Deposited Residue Count: 900 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
glycerol dehydrogenase	A, B	450	Schizosaccharomyces pombe	Mutation(s): 0  EC: 1.1.1.6
UniProt
Find proteins for O13702 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore O13702  Go to UniProtKB:  O13702

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	G [auth A], H [auth A], K [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ALA	E [auth A], F [auth A]	ALANINE C3 H7 N O2 QNAYBMKLOCPYGJ-REOHCLBHSA-N
ZN	C [auth A], I [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
K	D [auth A], J [auth B]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.209 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.182 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.98	α = 90
b = 105.98	β = 90
c = 140.63	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-08-16 
Deposition Author(s): Mulichak, A.M.

Revision History  

• Version 1.0: 2005-08-16
  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
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations