5W39

Crystal structure of mutant CJ YCEI protein (CJ-N182C) with monobromobimane guest structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.48 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.217 

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:  5W17, 5W2D, 5W2K, 5W2R, 5W2X, 5W2V, 5W2Z, 5W30, 5W31, 5W32, 5W37, 5W3A, 5W3B, 5W3C

  • 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
Molecule Chains Sequence Length Organism Details
Polyisoprenoid-binding protein
A
180 Campylobacter jejuni N/A
Find proteins for Q79JB5 (Campylobacter jejuni)
Go to UniProtKB:  Q79JB5
Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
9UM
Query on 9UM

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Download CCD File 
A
3-(bromomethyl)-2,5,6-trimethyl-1H,7H-pyrazolo[1,2-a]pyrazole-1,7-dione
C10 H11 Br N2 O2
AHEWZZJEDQVLOP-UHFFFAOYSA-N
 Ligand Interaction
LFA
Query on LFA

Download SDF File 
Download CCD File 
A
EICOSANE
LIPID FRAGMENT
C20 H42
CBFCDTFDPHXCNY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.48 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.217 
  • Space Group: P 6 2 2
Unit Cell:
Length (Å) Angle (°)
a = 178.242 α = 90.00
b = 178.242 β = 90.00
c = 50.599 γ = 120.00
Software Package:
Software Name Purpose
SCALA data scaling
PDB_EXTRACT data extraction
XDS data reduction
REFMAC phasing
REFMAC refinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2017-06-07 
  • Released Date: 2018-01-03 
  • Deposition Author(s): Huber, T.R., Snow, C.D.

Revision History 

  • Version 1.0: 2018-01-03
    Type: Initial release
  • Version 1.1: 2018-01-31
    Type: Database references