4PVI

Crystal structure of GH62 hydrolase in complex with xylotriose


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.129 
  • R-Value Observed: 0.130 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Crystal structure of GH62 hydrolase in complex with xylotriose

Kaur, A.P.Nocek, B.Xu, X.Lowden, M.J.Leyva, J.F.Stogios, P.J.Cui, H.Leo, R.D.Powlowski, J.Tsang, A.Savchenko, A.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
GH62 hydrolaseA342Mycothermus thermophilusMutation(s): 0 
Gene Names: AXH62C
EC: 3.2.1.55
UniProt
Find proteins for A0A059U759 (Mycothermus thermophilus)
Explore A0A059U759 
Go to UniProtKB:  A0A059U759
Protein Feature View
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranoseB3N/A Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G87429QT
GlyCosmos:  G87429QT
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
C [auth A], D [auth A]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2
IDChainsNameType/Class2D Diagram3D Interactions
PRD_900117
Query on PRD_900117
B4beta-beta-xylotrioseOligosaccharide /  Metabolism Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.129 
  • R-Value Observed: 0.130 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.445α = 90
b = 72.445β = 90
c = 62.099γ = 120
Software Package:
Software NamePurpose
SBC-Collectdata collection
MOLREPphasing
CCP4model building
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
CCP4phasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-24
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary