Octameric kinase domain of the E. coli tyrosine kinase Wzc with bound ADP

Experimental Data Snapshot

  • Resolution: 3.20 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 

Starting Model: experimental
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Identification of structural and molecular determinants of the tyrosine-kinase Wzc and implications in capsular polysaccharide export

Bechet, E.Gruszczyk, J.Terreux, R.Gueguen-Chaignon, V.Vigouroux, A.Obadia, B.Cozzone, A.J.Nessler, S.Grangeasse, C.

(2010) Mol Microbiol 77: 1315-1325

  • DOI: https://doi.org/10.1111/j.1365-2958.2010.07291.x
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Capsular polysaccharides are well-established virulence factors of pathogenic bacteria. Their biosynthesis and export are regulated within the transmembrane polysaccharide assembly machinery by the autophosphorylation of atypical tyrosine-kinases, named BY-kinases. However, the accurate functioning of these tyrosine-kinases remains unknown. Here, we report the crystal structure of the non-phosphorylated cytoplasmic domain of the tyrosine-kinase Wzc from Escherichia coli in complex with ADP showing that it forms a ring-shaped octamer. Mutational analysis demonstrates that a conserved EX(2) RX(2) R motif involved in subunit interactions is essential for polysaccharide export. We also elucidate the role of a putative internal regulatory tyrosine and we show that BY-kinases from proteobacteria autophosphorylate on their C-terminal tyrosine cluster via a single-step intermolecular mechanism. This structure-function analysis also allows us to demonstrate that two different parts of a conserved basic region called the RK-cluster are essential for polysaccharide export and for kinase activity respectively. Based on these data, we revisit the dichotomy made between BY-kinases from proteobacteria and firmicutes and we propose a unique process of oligomerization and phosphorylation. We also reassess the function of BY-kinases in the capsular polysaccharide assembly machinery.

  • Organizational Affiliation

    Institut de Biologie et Chimie des Protéines, CNRS, Université Lyon 1, Université de Lyon, 69367 Lyon, France.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tyrosine-protein kinase wzc
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
286Escherichia coli K-12Mutation(s): 0 
Gene Names: b2060JW2045wzc
EC: 2.7.10
Find proteins for P76387 (Escherichia coli (strain K12))
Explore P76387 
Go to UniProtKB:  P76387
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP76387
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on ADP

Download Ideal Coordinates CCD File 
AA [auth F]
CA [auth G]
EA [auth H]
GA [auth I]
IA [auth J]
AA [auth F],
CA [auth G],
EA [auth H],
GA [auth I],
IA [auth J],
KA [auth K],
MA [auth L],
OA [auth M],
Q [auth A],
QA [auth N],
S [auth B],
SA [auth O],
U [auth C],
UA [auth P],
W [auth D],
Y [auth E]
C10 H15 N5 O10 P2
Query on CA

Download Ideal Coordinates CCD File 
BA [auth F]
DA [auth G]
FA [auth H]
HA [auth I]
JA [auth J]
BA [auth F],
DA [auth G],
FA [auth H],
HA [auth I],
JA [auth J],
LA [auth K],
NA [auth L],
PA [auth M],
R [auth A],
RA [auth N],
T [auth B],
TA [auth O],
V [auth C],
VA [auth P],
X [auth D],
Z [auth E]
Experimental Data & Validation

Experimental Data

  • Resolution: 3.20 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 245.165α = 90
b = 137.782β = 92.99
c = 158.958γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-08-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2014-02-12
    Changes: Database references
  • Version 1.3: 2023-11-01
    Changes: Data collection, Database references, Derived calculations, Refinement description