2WY2

NMR structure of the IIAchitobiose-IIBchitobiose phosphoryl transition state complex of the N,N'-diacetylchitoboise brance of the E. coli phosphotransferase system.


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 64 
  • Conformers Submitted: 64 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Solution Structure of the Iiachitobose-Iibchitobiose Complex of the N,N'-Diacetylchitobiose Branch of the Escherichia Coli Phosphotransfer System

Jung, Y.S.Cai, M.Clore, G.M.

(2010) J Biol Chem 285: 4173

  • DOI: 10.1074/jbc.M109.080937
  • Primary Citation of Related Structures:  
    2WY2, 2WWV

  • PubMed Abstract: 
  • The solution structure of the IIA-IIB complex of the N,N'-diacetylchitobiose (Chb) transporter of the Escherichia coli phosphotransferase system has been solved by NMR. The active site His-89 of IIA(Chb) was mutated to Glu to mimic the phosphorylated ...

    The solution structure of the IIA-IIB complex of the N,N'-diacetylchitobiose (Chb) transporter of the Escherichia coli phosphotransferase system has been solved by NMR. The active site His-89 of IIA(Chb) was mutated to Glu to mimic the phosphorylated state and the active site Cys-10 of IIB(Chb) was substituted by serine to prevent intermolecular disulfide bond formation. Binding is weak with a K(D) of approximately 1.3 mm. The two complementary interaction surfaces are largely hydrophobic, with the protruding active site loop (residues 9-16) of IIB(Chb) buried deep within the active site cleft formed at the interface of two adjacent subunits of the IIA(Chb) trimer. The central hydrophobic portion of the interface is surrounded by a ring of polar and charged residues that provide a relatively small number of electrostatic intermolecular interactions that serve to correctly align the two proteins. The conformation of the active site loop in unphosphorylated IIB(Chb) is inconsistent with the formation of a phosphoryl transition state intermediate because of steric hindrance, especially from the methyl group of Ala-12 of IIB(Chb). Phosphorylation of IIB(Chb) is accompanied by a conformational change within the active site loop such that its path from residues 11-13 follows a mirror-like image relative to that in the unphosphorylated state. This involves a transition of the phi/psi angles of Gly-13 from the right to left alpha-helical region, as well as smaller changes in the backbone torsion angles of Ala-12 and Met-14. The resulting active site conformation is fully compatible with the formation of the His-89-P-Cys-10 phosphoryl transition state without necessitating any change in relative translation or orientation of the two proteins within the complex.


    Related Citations: 
    • Solution Structure of Enzyme Iia(Chitobiose) from the N,N'-Diacetylchitobiose Branch of the Escherichia Coli Phosphotransferase System.
      Tang, C., Williams, D.C.J., Ghirlando, R., Clore, G.M.
      (2005) J Biol Chem 280: 11770
    • The Structure of an Energy-Coupling Protein from Bacteria, Iibcellobiose, Reveals Similarity to Eukaryotic Protein Tyrosine Phosphatases.
      Van Montfort, R.L., Pijning, T., Kalk, K.H., Reizer, J., Saier, M.H.J., Thunnissen, M.M., Robillard, G.T., Dijkstra, B.W.
      (1997) Structure 5: 217
    • NMR Structure of Cysteinyl-Phosphorylated Enzyme Iib of the N,N'-Diacetylchitobiose-Specific Phosphoenolpyruvate-Dependent Phosphotransferase System of Escherichia Coli.
      Ab, E., Schuurman-Wolters, G.K., Nijlant, D., Dijkstra, K., Saier, M.H., Robillard, G.T., Scheek, R.M.
      (2001) J Mol Biol 308: 993

    Organizational Affiliation

    Laboratory of Chemical Physics, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
N\,N'-DIACETYLCHITOBIOSE-SPECIFIC PHOSPHOTRANSFERASE ENZYME IIA COMPONENTABC103Escherichia coliMutation(s): 1 
EC: 2.7.1
Find proteins for P69791 (Escherichia coli (strain K12))
Explore P69791 
Go to UniProtKB:  P69791
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
N\,N'-DIACETYLCHITOBIOSE-SPECIFIC PHOSPHOTRANSFERASE ENZYME IIB COMPONENTD103Escherichia coliMutation(s): 0 
EC: 2.7.1.69 (PDB Primary Data), 2.7.1.196 (UniProt)
Find proteins for P69795 (Escherichia coli (strain K12))
Explore P69795 
Go to UniProtKB:  P69795
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO3
Query on PO3

Download CCD File 
D
PHOSPHITE ION
O3 P
AQSJGOWTSHOLKH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 64 
  • Conformers Submitted: 64 
  • OLDERADO: 2WY2 Olderado

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-12-08
    Type: Initial release
  • Version 1.1: 2012-07-25
    Changes: Database references, Other, Version format compliance
  • Version 1.2: 2017-04-19
    Changes: Other
  • Version 1.3: 2019-10-16
    Changes: Data collection, Other, Source and taxonomy, Structure summary