4U4M

Crystal structure of 0.5M urea unfolded YagE, a KDG aldolase protein in complex with Pyruvate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.09 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.213 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Crystal structure of 0.5M urea unfolded YagE, a KDG aldolase protein in complex with Pyruvate

Manoj Kumar, P.Bhaskar, V.Manicka, S.Krishnaswamy, S.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
YagEA, B, C, D298Escherichia coli K-12Mutation(s): 0 
Gene Names: yagEb0268JW0261
EC: 4.1.2.51 (UniProt), 4.1.2.28 (UniProt)
UniProt
Find proteins for P75682 (Escherichia coli (strain K12))
Explore P75682 
Go to UniProtKB:  P75682
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PYR
Query on PYR

Download Ideal Coordinates CCD File 
H [auth A], Q [auth B], V [auth C], Y [auth D]PYRUVIC ACID
C3 H4 O3
LCTONWCANYUPML-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth D] , BA [auth D] , I [auth A] , J [auth A] , K [auth A] , L [auth A] , R [auth B] , S [auth B] , 
AA [auth D],  BA [auth D],  I [auth A],  J [auth A],  K [auth A],  L [auth A],  R [auth B],  S [auth B],  T [auth B],  Z [auth D]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
URE
Query on URE

Download Ideal Coordinates CCD File 
E [auth A] , F [auth A] , G [auth A] , M [auth B] , N [auth B] , O [auth B] , P [auth B] , U [auth C] , 
E [auth A],  F [auth A],  G [auth A],  M [auth B],  N [auth B],  O [auth B],  P [auth B],  U [auth C],  W [auth D],  X [auth D]
UREA
C H4 N2 O
XSQUKJJJFZCRTK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.09 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.213 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 141.4α = 90
b = 155.64β = 90
c = 55.92γ = 90
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-07-29
    Type: Initial release