1R4P

Shiga toxin type 2

Structural Biology Knowledgebase: 1R4P SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.151

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1R4P

Classification: toxin

Total Structure Weight: 74272.44

Macromolecule Entities
Molecule Chains Length Organism Details
shiga-like toxin type II A subunit A 297 Escherichia coli EC#: 3.2.2.22 IUBMB
Gene Name(s): stxA2 stx2A L0103
shiga-like toxin type II B subunit B, C, D, E, F 70 Escherichia coli Gene Name(s): stxB2 stx2B L0104

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1PS
Query on 1PS

B, C, D, F 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE
1-(3-SULFOPROPYL) PYRIDINIUM, PPS (Synonym)
C8 H11 N O3 S
REEBJQTUIJTGAL-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
EDO
Query on EDO

A, D, F 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
FMT
Query on FMT

A, B, C, D, E, F FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NA
Query on NA

A, B, F SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.184
  • R-Value Work: 0.151
  • Space Group: P 61
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 143.96 α = 90.00
b = 143.96 β = 90.00
c = 59.30 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-10-07
  • Released Date: 2004-05-11
  • Deposition author(s): Fraser, M.E., Fujinaga, M., Cherney, M.M., Melton-Celsa, A.R., Twiddy, E.M., O'Brien, A.D., James, M.N.G.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4