Biological Assembly 1  

 3D View: Structure

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 37733.61 
• Atom Count: 2648 
• Residue Count: 353 
• Unique protein chains: 1

2PEC

THE REFINED THREE-DIMENSIONAL STRUCTURE OF PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT 2.2 ANGSTROMS RESOLUTION: IMPLICATIONS FOR AN ENZYMATIC MECHANISM

• DOI: 10.2210/pdb2PEC/pdb
• Entry 2PEC supersedes 1PEC

• Classification: LYASE (ACTING ON POLYSACCHARIDES)
• Organism(s): Dickeya chrysanthemi


• Deposited: 1994-08-08 Released: 1995-02-14 
• Deposition Author(s): Yoder, M.D., Jurnak, F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å
• R-Value Work: 0.180 

Literature

Protein motifs. 3. The parallel beta helix and other coiled folds.

Yoder, M.D., Jurnak, F.

(1995) FASEB J. 9: 335-342

• PubMed: 7896002 


• PubMed Abstract: 
  

A new type of structural domain, composed of all parallel beta strands, has been observed within the last year. An analysis of the basic types suggests that there are two distinct classes: the parallel beta helices, which belong to a tri beta-strand category, and the beta roll, which belongs to a di beta-strand category. The novel structural features of each class are described and the proteins belonging to each category are summarized. Proteins with the parallel beta helix fold include three pectate lyases and the tailspike protein from P22 phage. Proteins with the beta roll fold include two alkaline proteases. Although the parallel beta composition is emphasized, the same set of proteins share another common structural feature with several other proteins containing alpha helices: the polypeptide backbone is folded into a coiled structure in which each coil has the same 3-dimensional arrangement of a group of secondary structural elements. In addition to parallel beta domains, the other groups include the alpha/beta coiled fold, as represented by ribonuclease inhibitor, and the alpha/alpha coiled fold, as represented by lipovitellin and soluble lytic transglycoslyase. Novel features of the alpha/beta and alpha/alpha coiled folds are summarized.

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Related Citations: 

• Preliminary Crystallographic Analysis of the Plant Pathogenic Factor, Pectate Lyase C from Erwinia Chrysanthemi
  Yoder, M.D.,Dechaine, C.A.,Jurnak, F.
  (1990) J.Biol.Chem. 265: 11429
• Structure and Organization of the Pel Genes from Erwinia Chrysanthemi Ec16
  Tamaki, S.J.,Gold, S.,Robeson, M.,Manulis, S.,Keen, N.T.
  (1988) J.Bacteriol. 170: 3468
• New Domain Motif: The Structure of Pectate Lyase C, a Secreted Plant Virulence Factor
  Yoder, M.D.,Keen, N.T.,Jurnak, F.
  (1993) Science 260: 1503
• Unusual Structural Features of the Parallel Beta-Helix of the Pectate Lyases
  Yoder, M.D.,Lietzke, S.E.,Jurnak, F.
  (1993) Structure 1: 241




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Organizational Affiliation: 

School of Biological Sciences, Division of Cell Biology and Biophysics, University of Missouri, Kansas City 64110.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PECTATE LYASE C	A	353	Dickeya chrysanthemi	Mutation(s): 0  Gene Names: pelC EC: 4.2.2.2
Find proteins for P11073 (Dickeya chrysanthemi) Go to UniProtKB:  P11073

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å
• R-Value Work: 0.180 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 73.380	α = 90.00
b = 80.260	β = 90.00
c = 95.120	γ = 90.00

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-08-08 
• Released Date: 1995-02-14 
• Deposition Author(s): Yoder, M.D., Jurnak, F.
• This entry supersedes: 1PEC

Revision History 

• Version 1.0: 1995-02-14
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-11-29
  Type: Derived calculations, Other