1ES5 | pdb_00001es5

S216A MUTANT OF STREPTOMYCES K15 DD-TRANSPEPTIDASE

• PDB DOI: https://doi.org/10.2210/pdb1ES5/pdb

• Classification: HYDROLASE
• Organism(s): Streptomyces sp. K15
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2000-04-07 Released: 2000-05-03 
• Deposition Author(s): Fonze, E., Charlier, P.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.212 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Literature

DD-TRANSPEPTIDASE

Fonze, E., Rhazi, N., Nguyen-Disteche, M., Charlier, P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 27.49 kDa 
• Atom Count: 2,148 
• Modeled Residue Count: 260 
• Deposited Residue Count: 262 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DD-TRANSPEPTIDASE	A	262	Streptomyces sp. K15	Mutation(s): 1  EC: 3.4.16.4
UniProt
Find proteins for P39042 (Streptomyces sp. (strain K15)) Explore P39042  Go to UniProtKB:  P39042

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.212 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.93	α = 90
b = 53.756	β = 90
c = 105.061	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
X-PLOR	refinement
MOSFLM	data reduction
SAINT	data reduction
CCP4	data scaling
TRUNCATE	data scaling
SAINT	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-05-03 
Deposition Author(s): Fonze, E., Charlier, P.

Revision History  

• Version 1.0: 2000-05-03
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2021-11-03
  Changes: Database references
• Version 1.5: 2024-02-07
  Changes: Data collection