3ITI

Structure of bovine trypsin with the MAD triangle B3C


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.213 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

How to get the magic triangle and the MAD triangle into your protein crystal.

Beck, T.da Cunha, C.E.Sheldrick, G.M.

(2009) Acta Crystallogr.,Sect.F 65: 1068-1070

  • DOI: 10.1107/S1744309109036884

  • PubMed Abstract: 
  • The magic triangle 5-amino-2,4,6-triiodoisophthalic acid (I3C) and the MAD triangle 5-amino-2,4,6-tribromoisophthalic acid (B3C) are two representatives of a novel class of compounds that combine heavy atoms for experimental phasing with functional g ...

    The magic triangle 5-amino-2,4,6-triiodoisophthalic acid (I3C) and the MAD triangle 5-amino-2,4,6-tribromoisophthalic acid (B3C) are two representatives of a novel class of compounds that combine heavy atoms for experimental phasing with functional groups for protein interactions. These compounds are readily available and provide easy access to experimental phasing. The preparation of stock solutions and the incorporation of the compounds into protein crystals are discussed. As an example of incorporation via cocrystallization, the incorporation of B3C into bovine trypsin, resulting in a single site with high occupancy, is described.


    Related Citations: 
    • 5-Amino-2,4,6-tribromoisophthalic acid: the MAD triangle for experimental phasing
      Beck, T.,Herbst-Irmer, R.,Sheldrick, G.M.
      (2009) Acta Crystallogr.,Sect.C 65: o237
    • The magic triangle goes MAD: phasing with a bromine derivative
      Beck, T.,Gruene, T.,Sheldrick, G.M.
      () Acta Crystallogr.,Sect.D --: --


    Organizational Affiliation

    Department of Structural Chemistry, Georg-August-Universität Göttingen, Tammannstrasse 4, 37077 Göttingen, Germany. tbeck@shelx.uni-ac.gwdg.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cationic trypsin
A
223Bos taurusMutation(s): 0 
EC: 3.4.21.4
Find proteins for P00760 (Bos taurus)
Go to UniProtKB:  P00760
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BRV
Query on BRV

Download SDF File 
Download CCD File 
A
5-amino-2,4,6-tribromobenzene-1,3-dicarboxylic acid
5-Amino-2,4,6-tribromoisophthalic acid
C8 H4 Br3 N O4
KGKQFJKPOZCZLD-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
BEN
Query on BEN

Download SDF File 
Download CCD File 
A
BENZAMIDINE
C7 H8 N2
PXXJHWLDUBFPOL-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BRVIC50: 270 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.213 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 53.658α = 90.00
b = 56.883β = 90.00
c = 66.808γ = 90.00
Software Package:
Software NamePurpose
SADABSdata scaling
SAINTdata reduction
SHELXDphasing
SHELXrefinement
PDB_EXTRACTdata extraction
SHELXL-97refinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-03-21
    Type: Database references
  • Version 1.3: 2018-01-24
    Type: Database references