3DO0

Thermolysin by classical hanging drop method after high X-Ray dose on esrf ID14-2 beamline

Structural Biology Knowledgebase: 3DO0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.36 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.223

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DO0

Classification: HYDROLASE

Total Structure Weight: 34850.65

Macromolecule Entities
Molecule Chains Length Organism Details
Thermolysin A 316 Bacillus thermoproteolyticus EC#: 3.4.24.27 IUBMB
Gene Name(s): npr

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

A LYSINE
C6 H15 N2 O2
KDXKERNSBIXSRK-YFKPBYRVSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
VAL
Query on VAL

A VALINE
C5 H11 N O2
KZSNJWFQEVHDMF-BYPYZUCNSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.36 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.223
  • Space Group: P 61 2 2

Unit Cell:

Length (Å) Angle (°)
a = 92.72 α = 90.00
b = 92.72 β = 90.00
c = 128.60 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-07-03
  • Released Date: 2009-07-07
  • Deposition author(s): Pechkova, E., Tripathi, S.K., Nicolini, C.

Revision History

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