5W2Z

Crystal structure of mutant CJ YCEI protein (CJ-N48C) with 5-mercapto-2-nitrobenzoic acid guest structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Installing Guest Molecules at Specific Sites within Scaffold Protein Crystals.

Huber, T.R.McPherson, E.C.Keating, C.E.Snow, C.D.

(2018) Bioconjug. Chem. 29: 17-22

  • DOI: 10.1021/acs.bioconjchem.7b00668
  • Primary Citation of Related Structures:  5W37, 5W39, 5W3A, 5W3B, 5W3C, 5W17, 5W2D, 5W2K, 5W2R, 5W2X, 5W2V, 5W30, 5W31, 5W32

  • PubMed Abstract: 
  • Protein crystals are porous self-assembling materials that can be rapidly evolved by mutagenesis. We aimed to develop scaffold assisted crystallography techniques in an engineered protein crystal with large pores (>13 nm). Guest molecules were instal ...

    Protein crystals are porous self-assembling materials that can be rapidly evolved by mutagenesis. We aimed to develop scaffold assisted crystallography techniques in an engineered protein crystal with large pores (>13 nm). Guest molecules were installed via a single covalent bond to attempt to reduce the conformational freedom and achieve high-occupancy structures. We used four different conjugation strategies to attach guest molecules to three different cysteine sites within pre-existing protein crystals. In all but one case, the presence of the adduct was obvious in the electron density. Structure determination of larger guest molecules may be feasible due to the large pores of the engineered scaffold crystals.


    Organizational Affiliation

    Department of Chemical and Biological Engineering, Colorado State University , 1301 Campus Delivery Fort Collins, Colorado 80523, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Putative periplasmic protein
A
180N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
MNB
Query on MNB

Download SDF File 
Download CCD File 
A
5-MERCAPTO-2-NITRO-BENZOIC ACID
C7 H5 N O4 S
GANZODCWZFAEGN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.203 
  • Space Group: P 6 2 2
Unit Cell:
Length (Å)Angle (°)
a = 179.858α = 90.00
b = 179.858β = 90.00
c = 50.623γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
PDB_EXTRACTdata extraction
SCALAdata scaling
REFMACphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-01-03
    Type: Initial release
  • Version 1.1: 2018-01-24
    Type: Database references