2ECK

STRUCTURE OF PHOSPHOTRANSFERASE

• PDB DOI: https://doi.org/10.2210/pdb2ECK/pdb
• Entry: 2ECK supersedes: 1ECK

• Classification: TRANSFERASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1996-12-16 Released: 1997-03-12 
• Deposition Author(s): Berry, M.B., Bilderback, T., Glaser, M., Phillips Jr., G.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.276 
• R-Value Work: 0.193 
• R-Value Observed: 0.193 

Literature

Crystal structure of ADP/AMP complex of Escherichia coli adenylate kinase.

Berry, M.B., Bae, E., Bilderback, T.R., Glaser, M., Phillips, G.N.

(2006) Proteins 62: 555-556

• PubMed: 16302237 
• DOI: https://doi.org/10.1002/prot.20699
• Primary Citation of Related Structures:  
  2ECK

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Organizational Affiliation: 

W. M. Keck Center for Computational Biology, Department of Biochemistry and Cell Biology, Rice University, Houston, Texas, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 48.79 kDa 
• Atom Count: 3,474 
• Modelled Residue Count: 428 
• Deposited Residue Count: 428 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADENYLATE KINASE	A, B	214	Escherichia coli	Mutation(s): 0  Gene Names: ADK+ EC: 2.7.4.3
UniProt
Find proteins for P69441 (Escherichia coli (strain K12)) Explore P69441  Go to UniProtKB:  P69441

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	D [auth A], F [auth B]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
AMP	C [auth A], E [auth B]	ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.276 
• R-Value Work: 0.193 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.5	α = 90
b = 84.8	β = 90
c = 80.3	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-03-12 
Deposition Author(s): Berry, M.B., Bilderback, T., Glaser, M., Phillips Jr., G.N.
• This entry supersedes: 1ECK

Revision History  

• Version 1.0: 1997-03-12
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-03-07
  Changes: Data collection, Other
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations