5XRV

Crystal Structure of Transketolase in complex with TPP_V and fructose-6-phosphate from Pichia Stipitis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.138 
  • R-Value Work: 0.121 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Evidence of Diradicals Involved in the Yeast Transketolase Catalyzed Keto-Transferring Reactions.

Hsu, N.S.Wang, Y.L.Lin, K.H.Chang, C.F.Ke, S.C.Lyu, S.Y.Hsu, L.J.Li, Y.S.Chen, S.C.Wang, K.C.Li, T.L.

(2018) Chembiochem 19: 2395-2402


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transketolase
A
697Scheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545)Mutation(s): 0 
Gene Names: TKT (TKT1)
EC: 2.2.1.1
Find proteins for P34736 (Scheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545))
Go to Gene View: TKT
Go to UniProtKB:  P34736
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TPP
Query on TPP

Download SDF File 
Download CCD File 
A
THIAMINE DIPHOSPHATE
C12 H19 N4 O7 P2 S
AYEKOFBPNLCAJY-UHFFFAOYSA-O
 Ligand Interaction
CA
Query on CA

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Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
F6R
Query on F6R

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Download CCD File 
A
FRUCTOSE -6-PHOSPHATE
C6 H13 O9 P
GSXOAOHZAIYLCY-HSUXUTPPSA-N
 Ligand Interaction
8EF
Query on 8EF

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Download CCD File 
A
2-[(5S)-3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methylidene-1,3-thiazolidin-5-yl]ethyl phosphono hydrogen phosphate
C12 H20 N4 O7 P2 S
YBJKPSYOFQHZDJ-NSHDSACASA-N
 Ligand Interaction
PEG
Query on PEG

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Download CCD File 
A
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.138 
  • R-Value Work: 0.121 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 100.869α = 90.00
b = 183.423β = 90.00
c = 98.841γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data processing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-06-13
    Type: Initial release
  • Version 1.1: 2018-12-19
    Type: Data collection, Database references