5Z6B

Crystal structure of sugar-binding protein YesO in complex with rhamnogalacturonan trisaccharide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.582 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of sugar-binding protein YesO in complex with rhamnogalacturonan trisaccharide

Sugiura, H.Oiki, S.Mikami, B.Murata, K.Hashimoto, W.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Putative ABC transporter substrate-binding protein YesO
A
427Bacillus subtilis (strain 168)Mutation(s): 0 
Gene Names: yesO
Find proteins for O31518 (Bacillus subtilis (strain 168))
Go to UniProtKB:  O31518
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RAM
Query on RAM

Download SDF File 
Download CCD File 
A
ALPHA-L-RHAMNOSE
C6 H12 O5
SHZGCJCMOBCMKK-HGVZOGFYSA-N
 Ligand Interaction
GAD
Query on GAD

Download SDF File 
Download CCD File 
A
2,6-ANHYDRO-3-DEOXY-D-ERYTHRO-HEX-2-ENONIC ACID
C6 H8 O5
GQECVRZDTXJRPX-IMJSIDKUSA-N
 Ligand Interaction
GAL
Query on GAL

Download SDF File 
Download CCD File 
A
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.582 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.179 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 42.230α = 90.00
b = 78.592β = 102.04
c = 54.075γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHENIXrefinement
MOLREPphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Fuji Foundation for Protein ResearchJapan--

Revision History 

  • Version 1.0: 2019-01-23
    Type: Initial release