1H9C

NMR structure of cysteinyl-phosphorylated enzyme IIB of the N,N'-diacetylchitobiose specific phosphoenolpyruvate-dependent phosphotransferase system of Escherichia coli.


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 33 
  • Conformers Submitted: 
  • Selection Criteria: TARGET-FUNCTION, R-FACTOR, NUMBER OF VIOLATIONS 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

NMR Structure of Cysteinyl-Phosphorylated Enzyme Iib of the N,N'-Diacetylchitobiose Specific Phosphoenolpyruvate-Dependentphosphotransferase 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

  • DOI: 10.1006/jmbi.2001.4623
  • Also Cited By: 2WWV, 2WY2

  • PubMed Abstract: 
  • The determination by NMR of the solution structure of the phosphorylated enzyme IIB (P-IIB(Chb)) of the N,N'-diacetylchitobiose-specific phosphoenolpyruvate-dependent phosphotransferase system of Escherichia coli is presented. Most of the backbone an ...

    The determination by NMR of the solution structure of the phosphorylated enzyme IIB (P-IIB(Chb)) of the N,N'-diacetylchitobiose-specific phosphoenolpyruvate-dependent phosphotransferase system of Escherichia coli is presented. Most of the backbone and side-chain resonances were assigned using a variety of mostly heteronuclear NMR experiments. The remaining resonances were assigned with the help of the structure calculations.NOE-derived distance restraints were used in distance geometry calculations followed by molecular dynamics and simulated annealing protocols. In addition, combinations of ambiguous restraints were used to resolve ambiguities in the NOE assignments. By combining sets of ambiguous and unambiguous restraints into new ambiguous restraints, an error function was constructed that was less sensitive to information loss caused by assignment uncertainties. The final set of structures had a pairwise rmsd of 0.59 A and 1.16 A for the heavy atoms of the backbone and side-chains, respectively. Comparing the P-IIB(Chb) solution structure with the previously determined NMR and X-ray structures of the wild-type and the Cys10Ser mutant shows that significant differences between the structures are limited to the active-site region. The phosphoryl group at the active-site cysteine residue is surrounded by a loop formed by residues 10 through 16. NOE and chemical shift data suggest that the phosphoryl group makes hydrogen bonds with the backbone amide protons of residues 12 and 15. The binding mode of the phosphoryl group is very similar to that of the protein tyrosine phosphatases. The differences observed are in accordance with the presumption that IIB(Chb) has to be more resistant to hydrolysis than the protein tyrosine phosphatases. We propose a proton relay network by which a transfer occurs between the cysteine SH proton and the solvent via the hydroxyl group of Thr16.


    Related Citations: 
    • Enzyme Iibcellobiose of the Phosphoenol-Pyruvate-Dependent Phosphotransferase System of Escherichia Coli: Backbone Assignment and Secondary Structure Determined by Three-Dimensional NMR Spectroscopy
      Ab, E.,Schuurman-Wolters, G.K.,Saier, M.H.,Reizer, J.,Jacuinod, M.,Roepstorff, P.,Dijkstra, K.,Scheek, R.M.,Robillard, G.T.
      (1994) Protein Sci. 3(2): 282
    • Characterization and Nucleotide Sequence of the Cryptic Cel Operon of Escherichia Coli K12
      Parker, L.L.,Hall, B.G.
      (1990) Genetics 124: 455
    • The NMR Side-Chain Assignments and Solution Structure of Enzyme Iibcellobiose of the Phosphoenolpyruvate-Dependent Phosphotransferase System of Escherichia Coli
      Ab, E.,Schuurman-Wolters, G.,Reizer, J.,Saier, M.H.,Dijkstra, K.,Scheek, R.M.,Robillard, G.T.
      (1997) Protein Sci. 6: 304
    • The Cellobiose Permease of Escherichia Coli Consists of Three Proteins and is Homologous to the Lactose Permease of Staphylococcus Aureus
      Reizer, J.,Reizer, A.,Saier Junior, M.H.
      (1990) Res.Microbiol. 141: 1061


    Organizational Affiliation

    The Groningen Biomolecular Science and Biotechnology Institute (GBB), University of Groningen, Nijenborgh 4, Groningen, 9747 AG, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PTS SYSTEM, CHITOBIOSE-SPECIFIC IIB COMPONENT
A
106Escherichia coli (strain K12)Gene Names: chbB (celA)
EC: 2.7.1.194, 2.7.1.191, 2.7.1.192, 2.7.1.195, 2.7.1.193
Find proteins for P69795 (Escherichia coli (strain K12))
Go to UniProtKB:  P69795
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CSP
Query on CSP
A
L-PEPTIDE LINKINGC3 H8 N O5 P SCYS
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 33 
  • Conformers Submitted: 
  • Selection Criteria: TARGET-FUNCTION, R-FACTOR, NUMBER OF VIOLATIONS 
  • Olderado: 1H9C Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-05-21
    Type: Initial release
  • Version 1.1: 2011-05-07
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance